A subsumer matrix M for terms \(j \in \{1, \dots, n\}\) has value \(M_{i,j}=1\) iff class i (which can be an anonymous class expression) subsumes term j, and zero otherwise. Therefore, it will have n columns, one for each term.
subsumer_matrix(
terms,
.colnames = c("ID", "IRI", "label"),
.labels = NULL,
preserveOrder = FALSE,
verbose = FALSE
)character, the list of terms for which to compute the dependency matrix. Can be given as term IRIs or term labels, and the list can contain both. Terms given as labels will first be resolved to IRIs, assuming they are from an anatomy ontology.
character, how to name the columns of the resulting matrix.
"ID" (the default): use the term IDs (the last component of the
term IRIs).
"IRI": use the term IRIs.
"label": use the terms' labels (see .labels parameter).
character, the labels for terms where known. Only used if
.colnames = "label". If NULL (the default), labels will be looked up if terms
are provided as IRIs; elements of the terms list that are not in IRI form
are assumed to be the label. If a list, must have the same length and ordering
as terms; any NA elements will be looked up (from the corresponding term
IRI).
logical, whether to return columns in the same
order as terms. The default is not to preserve the order.
logical, whether to print informative messages about certain potentially time-consuming operations.
A data.frame representing the subsumer matrix
The matrix will have additional attributes depending on the choice of how to
name rows and columns. If .colnames = "ID" (the default), the matrix will have
an attribute prefixes giving the URL prefixes removed from the term IRIs
to yield the IDs, in the order of the rows. If .colnames = "label", it will
have attribute term.iris, giving the term IRIs for the rows (and columns).
Note that these extra attributes will be lost upon subsetting the returned
matrix.
In this implementation, for each row i \(\sum_{j=1}^{n}M_{i,j} > 0\). That is, each row will have at least one non-zero value, which means that the number of classes not subsuming a term will be highly incomplete, because the (usually very many) classes not subsuming any of the terms will not be included. This subsumer matrix is thus only useful for similarity metrics for which non-subsuming terms can be ignored.
tl <- c("http://purl.obolibrary.org/obo/UBERON_0000981",
"http://purl.obolibrary.org/obo/UBERON_0002103",
"http://purl.obolibrary.org/obo/UBERON_0000976",
"http://purl.obolibrary.org/obo/UBERON_0002102")
m <- subsumer_matrix(tl)
m <- # term IDs as column names
id_prefixes <- attr(m, "prefixes")
id_prefixes # 4x "http://purl.obolibrary.org/obo/"
#> [1] "http://purl.obolibrary.org/obo/" "http://purl.obolibrary.org/obo/"
#> [3] "http://purl.obolibrary.org/obo/" "http://purl.obolibrary.org/obo/"
m <- subsumer_matrix(tl, .colnames = "label")
m # term labels as column names
#> humerus
#> http://purl.obolibrary.org/obo/BFO_0000040 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#d4efd6d3e3079a6f9e546a468d335853caa4db30 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#9e1024727d9376ecf218344d6ad130906d6df058 1
#> http://purl.obolibrary.org/obo/UBERON_0015053 1
#> http://purl.obolibrary.org/obo/BFO_0000004 1
#> http://purl.obolibrary.org/obo/UBERON_0008202 0
#> http://purl.obolibrary.org/obo/CARO_0000006 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#35fdeef4b6a61a37ea3d6fb1424521379d117dfe 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#c7d72b4fcc6844afca805177711ffd96f4d11c0c 0
#> http://purl.obolibrary.org/obo/UBERON_0010740 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#e33ad1fc5c0381ebf79b1f5b3ebbdda3f6becd12 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#2b28a94a749dcd5fe5b8bb16d67b45ff3eb82364 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#a28c7fb833e0ac1b4f38fd678f08fd9bf618275e 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#389e40bcc0f2ee29ceab773cf838da24fb9cf8a8 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#ee65670e816cb53d86ef8d3e19246f7f9204613b 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#b927b6575c7de6aad2461a6cc872c38533c6067c 1
#> http://purl.obolibrary.org/obo/CARO_0030000 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#5458076471e0494e053a0f4fe71c85b7228308e8 0
#> http://purl.obolibrary.org/obo/UBERON_0010363 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#55506431b5281d1836c30447a458e175dc2772ab 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#0fa773618d439e14c5d0c8454089b1429ba75b78 1
#> http://purl.obolibrary.org/obo/UBERON_0000062 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#7df279ed079f1d765652f52fc6e07b6fcd4bc3a5 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#f3f2cd397e26c84731c07150a8f5573219447d9b 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#c108b31214178fb7d49afc7c2c5e882398926f55 1
#> http://purl.obolibrary.org/obo/UBERON_0004765 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#291d17f04104659cc51d1c10529b2740ac19cfa2 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#1e54b004f4664ee5f9f133d3d2f24fc015aac522 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#33e9db4d6ab441ba46191417dfcbb24ec338ecfb 0
#> http://purl.obolibrary.org/obo/UBERON_0010000 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#0a7e6e0ed3bb8f7c72e2feaf5d8f479c7b88d77b 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#066784cbc3988e05184000cd4ced81c4126aaee3 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#bfd5bd1a5bb65f09ea08eb0702e7352bffa964a9 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#66fba214a7be872cf00adefc95741b64dbc93445 1
#> http://purl.obolibrary.org/obo/UBERON_0002103 0
#> http://purl.obolibrary.org/obo/UBERON_0003608 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#35fdeef4b6a61a37ea3d6fb1424521379d117dfe 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#7888f3228849c996db2e8ce08a8b9e978d093f65 1
#> http://purl.obolibrary.org/obo/UBERON_0004375 1
#> http://purl.obolibrary.org/obo/CARO_0000000 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#0f88750d425c2451b7023f7d755deeaa16c241c7 1
#> http://purl.obolibrary.org/obo/CARO_0010000 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#4790142e0ee3c490b847afd96af664fd7de3b0d7 1
#> http://purl.obolibrary.org/obo/UBERON_0001062 1
#> http://purl.obolibrary.org/obo/UBERON_0000026 0
#> http://purl.obolibrary.org/obo/UBERON_0010741 1
#> http://purl.obolibrary.org/obo/UBERON_0002102 0
#> http://purl.obolibrary.org/obo/UBERON_0004250 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#a95418ed00c566b8e6ca00f079d610221245b17a 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#b97df8bca2c716b4018c02129fc1446a57add8d8 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#2f058e210cf57457832ef3fd12af91a3517318f8 0
#> http://purl.obolibrary.org/obo/UBERON_0015061 1
#> http://purl.obolibrary.org/obo/UBERON_0015021 1
#> http://purl.obolibrary.org/obo/UBERON_0003464 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#112ebb5ef353bd352bec396009c4f807ebbef0f9 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#b2849559cd196b2fe2b0004cd6799a4300e90d67 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#cb93567b99510af59678a03a169c93bd1a39e28e 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#d832f3e2aa0aad06f0ce89145d70eb1516f617eb 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#5128582603123d3ed8d0e8a8dd4d4a9c0fa04139 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#0fa773618d439e14c5d0c8454089b1429ba75b78 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#48e1d87e630d4d02948c561892cd345639ac18da 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#bfeb8e86e7139e6587ea609a4ec953a80cbb11b7 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#79d6cd84dea8cebaf433e17c6d38dcb3f093bc49 1
#> http://purl.obolibrary.org/obo/UBERON_0000061 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#36c6fbaaaf67f7a2c5c9cbdb82778a95d073a3d7 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#8b97c58181961564206eb46c754ad4a6403f4e5c 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#f6813d98995c4f90e2d58696b22f412596fa57e1 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#0915cc3eaa25f99c90cae855100608b888281ed9 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#dc13d2a4ea21a38ce3685c03b9bf0d3da87cdd57 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#341f553b7b879ec7cfc9c82ef8b9f62f61d76113 1
#> http://purl.obolibrary.org/obo/UBERON_0005893 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#5ff71694560e74bbdc5d5cbe01c5701f21870889 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#01b74d48bf517fe8d3ef1d836045cc9695824add 1
#> http://purl.obolibrary.org/obo/UBERON_0002428 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#7eaddddd0f55ce63c0e3a9b6b74e47672a11d2eb 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#88f3d0990f9da8c1cab0218e27686155b4d7eadb 1
#> http://purl.obolibrary.org/obo/UBERON_0000475 0
#> http://purl.obolibrary.org/obo/UBERON_0002101 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#cb6bd4cc9a2678e99878223bddf7d3b39c14a1bc 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#2309d3fe5a41c630b3ee8b642786c6a32fcad2a5 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#88f85982cad045e9c5071436278b857485b7bb70 0
#> http://purl.obolibrary.org/obo/BFO_0000002 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#bb08ef78a6a1937463724f327ba526050e9aa97e 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#c1d8b411bcc45d1b1677d34108a69fcda07a50fd 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#01f030703bb1ba832bccebbd0476261d5b2f336b 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#51cc993d72f375a8b66e9e0972ad0d4676b01ba4 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#837b44a7c5e8a54b595064d6bbc16d93cee83cac 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#1063692b41d846dfb2be09cc3cc433024a10f7c2 1
#> http://purl.obolibrary.org/obo/UBERON_0002495 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#2f23b408cbe9528d69f327d3512f6aac211426e5 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#01b74d48bf517fe8d3ef1d836045cc9695824add 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#29d62f50a28c542c1f432254b44674ca5d511e69 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#85ddc6d352f336d7d8a9430aa720e042cbdb5978 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#0672962bc31ecf1f8b0c2e355a77352daf81cbc7 1
#> http://purl.obolibrary.org/obo/UBERON_0002513 1
#> http://purl.obolibrary.org/obo/UBERON_0003826 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#2b0efb70967b1e1ffa7106ff3a570eafe61894bb 1
#> http://purl.obolibrary.org/obo/UBERON_0008962 1
#> http://purl.obolibrary.org/obo/CARO_0000032 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#47683fba040752fd0daca8d5ad1d8ef21500e723 1
#> http://purl.obolibrary.org/obo/UBERON_0003607 1
#> http://purl.obolibrary.org/obo/CARO_0010003 0
#> http://purl.obolibrary.org/obo/UBERON_0001474 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#57c551e26482551cd7a7dd8fc325e076bdadae2f 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#c00f2964f6f5031126222f2e76c56b84f5234e36 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#79d6cd84dea8cebaf433e17c6d38dcb3f093bc49 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#f5521a87fc43e371df99afc15df03c2259a99b65 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#284972f21d1daaf47d8ce59b39c947bf9b684dcc 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#e4472ee8ea403f22844028c95dd72dec11d0f6d8 1
#> http://purl.obolibrary.org/obo/UBERON_0004709 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#f7105876477dfb5ac3b1ac99efced3c9ecdde3dc 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#81749c2e9f6245dde45246418aeb4d370dd0a896 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#eecead2425f1e6f48a32bf1108b0cba861fe9ffe 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#ba21412602eeaf58db584bcbc543c7d3ba09acd5 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#bc96d5a1896ff23a4703c5f374e52874c782644a 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#315cbfdf64d2438535d5d8256c51300415a0ae95 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#83dcb8b4b290dd0f1514ff8ae87a90f5a276f6d9 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#540b741474eff9b70d5992f518bb707afa29d971 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#979bce0a19c5fc89e761fc0d37b2b0345a0c122f 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#7888f3228849c996db2e8ce08a8b9e978d093f65 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#789447e98e65a8361ca59f7e16bc4881f7e112f1 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#08915c6d292d9ca973678503d4974ddb43e9bc50 1
#> http://purl.obolibrary.org/obo/UBERON_0015052 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#c902b9a32917e92b6a69376cdfd23a300ba0dc97 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#1ccd67a119b9528dd67abcd6a1d88f3fb8a69b27 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#99d04c20009dd1ac20b1135507c65660dfa8e55a 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#170ba1b5100b484b56d9bb57d53b7da28bb1fbf4 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#152892b7294ea667821f976002ad724ab87f5297 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#16514e07ec77920498be63ce716adb15d2f51b43 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#7e755a42ba90eccf12fcc192b8dce05675d6713c 1
#> http://purl.obolibrary.org/obo/CARO_0000003 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#62e4d9459f86925d6ad2abc35b85ef42d4e5f7db 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#2830adbd9a3cce5ea8d4cad5d99ac263dac0ab90 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#fed0f557a1ffb0cc5e161aa7303e7b7f2927abf9 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#56fac789d93fe83ffc9bfa23ff9d6a1562cc93f9 0
#> http://purl.obolibrary.org/obo/UBERON_0000981 0
#> http://purl.obolibrary.org/obo/UBERON_0015022 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#7639de9150750dafbf77ac929be779975a2d92a8 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#76441592845b5e85d2fb015459078cb8b9762b5c 0
#> http://purl.obolibrary.org/obo/UBERON_0003460 1
#> http://purl.obolibrary.org/obo/UBERON_0003606 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#d11a6ee1d297ad132fe2c7a627f4748a399c1026 0
#> http://purl.obolibrary.org/obo/UBERON_0003461 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#c09311ea18bdb06531ef9b1fbe5dccc4af3b19d6 1
#> http://purl.obolibrary.org/obo/UBERON_0000465 1
#> http://purl.obolibrary.org/obo/UBERON_0004710 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#4b4e0e11aace200248b8c85c4a45a1dd544d6e08 0
#> http://purl.obolibrary.org/obo/UBERON_0000976 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#8c1e43a30989d6b86248aeb788170751281b606f 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#888a53f22969617fe5edc2b6bf00d82f0b4d4b26 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#d2e2ec297f6165aef046aaa2903886e0ee23b75d 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#263487dda45938dc7a3e71bfdc90fb339e615f04 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#1ed8e22925e9e7bb792740a2217b311408c51aa1 1
#> http://purl.obolibrary.org/obo/UBERON_0004708 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#0547c6276154e33fc4a81e6c174c32821e64f01b 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#57c551e26482551cd7a7dd8fc325e076bdadae2f 1
#> http://purl.obolibrary.org/obo/UBERON_0010742 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#c09311ea18bdb06531ef9b1fbe5dccc4af3b19d6 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#9a4ec1190d2999a20b9b8f24f1ff2b774acc820b 0
#> http://purl.obolibrary.org/obo/CARO_0020004 1
#> femur
#> http://purl.obolibrary.org/obo/BFO_0000040 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#d4efd6d3e3079a6f9e546a468d335853caa4db30 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#9e1024727d9376ecf218344d6ad130906d6df058 0
#> http://purl.obolibrary.org/obo/UBERON_0015053 0
#> http://purl.obolibrary.org/obo/BFO_0000004 1
#> http://purl.obolibrary.org/obo/UBERON_0008202 1
#> http://purl.obolibrary.org/obo/CARO_0000006 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#35fdeef4b6a61a37ea3d6fb1424521379d117dfe 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#c7d72b4fcc6844afca805177711ffd96f4d11c0c 0
#> http://purl.obolibrary.org/obo/UBERON_0010740 1
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#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#5ff71694560e74bbdc5d5cbe01c5701f21870889 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#01b74d48bf517fe8d3ef1d836045cc9695824add 1
#> http://purl.obolibrary.org/obo/UBERON_0002428 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#7eaddddd0f55ce63c0e3a9b6b74e47672a11d2eb 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#88f3d0990f9da8c1cab0218e27686155b4d7eadb 0
#> http://purl.obolibrary.org/obo/UBERON_0000475 1
#> http://purl.obolibrary.org/obo/UBERON_0002101 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#cb6bd4cc9a2678e99878223bddf7d3b39c14a1bc 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#2309d3fe5a41c630b3ee8b642786c6a32fcad2a5 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#88f85982cad045e9c5071436278b857485b7bb70 0
#> http://purl.obolibrary.org/obo/BFO_0000002 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#bb08ef78a6a1937463724f327ba526050e9aa97e 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#c1d8b411bcc45d1b1677d34108a69fcda07a50fd 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#01f030703bb1ba832bccebbd0476261d5b2f336b 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#51cc993d72f375a8b66e9e0972ad0d4676b01ba4 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#837b44a7c5e8a54b595064d6bbc16d93cee83cac 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#1063692b41d846dfb2be09cc3cc433024a10f7c2 0
#> http://purl.obolibrary.org/obo/UBERON_0002495 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#2f23b408cbe9528d69f327d3512f6aac211426e5 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#01b74d48bf517fe8d3ef1d836045cc9695824add 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#29d62f50a28c542c1f432254b44674ca5d511e69 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#85ddc6d352f336d7d8a9430aa720e042cbdb5978 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#0672962bc31ecf1f8b0c2e355a77352daf81cbc7 0
#> http://purl.obolibrary.org/obo/UBERON_0002513 0
#> http://purl.obolibrary.org/obo/UBERON_0003826 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#2b0efb70967b1e1ffa7106ff3a570eafe61894bb 0
#> http://purl.obolibrary.org/obo/UBERON_0008962 0
#> http://purl.obolibrary.org/obo/CARO_0000032 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#47683fba040752fd0daca8d5ad1d8ef21500e723 0
#> http://purl.obolibrary.org/obo/UBERON_0003607 0
#> http://purl.obolibrary.org/obo/CARO_0010003 1
#> http://purl.obolibrary.org/obo/UBERON_0001474 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#57c551e26482551cd7a7dd8fc325e076bdadae2f 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#c00f2964f6f5031126222f2e76c56b84f5234e36 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#79d6cd84dea8cebaf433e17c6d38dcb3f093bc49 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#f5521a87fc43e371df99afc15df03c2259a99b65 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#284972f21d1daaf47d8ce59b39c947bf9b684dcc 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#e4472ee8ea403f22844028c95dd72dec11d0f6d8 0
#> http://purl.obolibrary.org/obo/UBERON_0004709 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#f7105876477dfb5ac3b1ac99efced3c9ecdde3dc 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#81749c2e9f6245dde45246418aeb4d370dd0a896 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#eecead2425f1e6f48a32bf1108b0cba861fe9ffe 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#ba21412602eeaf58db584bcbc543c7d3ba09acd5 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#bc96d5a1896ff23a4703c5f374e52874c782644a 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#315cbfdf64d2438535d5d8256c51300415a0ae95 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#83dcb8b4b290dd0f1514ff8ae87a90f5a276f6d9 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#540b741474eff9b70d5992f518bb707afa29d971 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#979bce0a19c5fc89e761fc0d37b2b0345a0c122f 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#7888f3228849c996db2e8ce08a8b9e978d093f65 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#789447e98e65a8361ca59f7e16bc4881f7e112f1 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#08915c6d292d9ca973678503d4974ddb43e9bc50 1
#> http://purl.obolibrary.org/obo/UBERON_0015052 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#c902b9a32917e92b6a69376cdfd23a300ba0dc97 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#1ccd67a119b9528dd67abcd6a1d88f3fb8a69b27 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#99d04c20009dd1ac20b1135507c65660dfa8e55a 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#170ba1b5100b484b56d9bb57d53b7da28bb1fbf4 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#152892b7294ea667821f976002ad724ab87f5297 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#16514e07ec77920498be63ce716adb15d2f51b43 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#7e755a42ba90eccf12fcc192b8dce05675d6713c 0
#> http://purl.obolibrary.org/obo/CARO_0000003 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#62e4d9459f86925d6ad2abc35b85ef42d4e5f7db 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#2830adbd9a3cce5ea8d4cad5d99ac263dac0ab90 1
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#fed0f557a1ffb0cc5e161aa7303e7b7f2927abf9 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#56fac789d93fe83ffc9bfa23ff9d6a1562cc93f9 0
#> http://purl.obolibrary.org/obo/UBERON_0000981 0
#> http://purl.obolibrary.org/obo/UBERON_0015022 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#7639de9150750dafbf77ac929be779975a2d92a8 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#76441592845b5e85d2fb015459078cb8b9762b5c 0
#> http://purl.obolibrary.org/obo/UBERON_0003460 0
#> http://purl.obolibrary.org/obo/UBERON_0003606 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#d11a6ee1d297ad132fe2c7a627f4748a399c1026 0
#> http://purl.obolibrary.org/obo/UBERON_0003461 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#c09311ea18bdb06531ef9b1fbe5dccc4af3b19d6 1
#> http://purl.obolibrary.org/obo/UBERON_0000465 1
#> http://purl.obolibrary.org/obo/UBERON_0004710 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#4b4e0e11aace200248b8c85c4a45a1dd544d6e08 0
#> http://purl.obolibrary.org/obo/UBERON_0000976 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#8c1e43a30989d6b86248aeb788170751281b606f 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#888a53f22969617fe5edc2b6bf00d82f0b4d4b26 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#d2e2ec297f6165aef046aaa2903886e0ee23b75d 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#263487dda45938dc7a3e71bfdc90fb339e615f04 0
#> http://purl.org/phenoscape/kb/patterns/develops_from.yaml#1ed8e22925e9e7bb792740a2217b311408c51aa1 0
#> http://purl.obolibrary.org/obo/UBERON_0004708 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#0547c6276154e33fc4a81e6c174c32821e64f01b 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#57c551e26482551cd7a7dd8fc325e076bdadae2f 1
#> http://purl.obolibrary.org/obo/UBERON_0010742 0
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#c09311ea18bdb06531ef9b1fbe5dccc4af3b19d6 1
#> http://purl.org/phenoscape/kb/patterns/part_of.yaml#9a4ec1190d2999a20b9b8f24f1ff2b774acc820b 0
#> http://purl.obolibrary.org/obo/CARO_0020004 0
mat_terms <- attr(m, "term.iris")
mat_terms # term IRIs in the same order as columns
#> [1] "http://purl.obolibrary.org/obo/UBERON_0000976"
#> [2] "http://purl.obolibrary.org/obo/UBERON_0000981"
#> [3] "http://purl.obolibrary.org/obo/UBERON_0002102"
#> [4] "http://purl.obolibrary.org/obo/UBERON_0002103"