October 4, 2017
View4acf0d7

documentation for geneToMotif, motifToGene, associateT...

paul-shannon authored on 04/10/2017 19:49:25
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lexical only: renamed 2 variables

paul-shannon authored on 04/10/2017 17:49:04
October 3, 2017
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motifToGene sidesteps regexes by grep fixed=TRUE

paul-shannon authored on 03/10/2017 18:13:41
September 26, 2017
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motif/TF mapping sources now case insensitive

paul-shannon authored on 26/09/2017 20:09:39
September 18, 2017
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Fixed jaspar format spacing and updated DESCRIPTION

Matthew Richards authored on 18/09/2017 18:31:33
September 12, 2017
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now annotates to TFs properly for MotifDb and TFClass sources

paul-shannon authored on 12/09/2017 20:20:46
September 7, 2017
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geneToMotif, motifToGene, associateTranscriptionFactors tested

paul-shannon authored on 07/09/2017 23:28:23
August 13, 2017
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roughed in data, methods and tests for mapping tf genes <--> motifs

paul-shannon authored on 13/08/2017 00:19:12
August 1, 2017
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Updated unit tests to accomodate added motifs

Matthew Richards authored on 01/08/2017 16:44:49
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Fixed 2 of 6 failing unit tests

Matthew Richards authored on 01/08/2017 00:26:44
June 15, 2017
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Added jaspar output format and unit tests

Matthew Richards authored on 15/06/2017 22:50:54
August 28, 2015
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in test.geneIdsAndTypes, typeCounts are now checked against minima, rather than absolute counts, hopting to make these tests robust against future additions to the data

p.shannon authored on 28/08/2015 20:43:22
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expanded to top=50 rtahern top=5 in call to motifMatch, to ensure the search target is returned. this accomodates the peculiar fact MotIV's match algorithm and results differs on linux and macos

p.shannon authored on 28/08/2015 20:40:02
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relaxed test.run_MotIV.motifMatch() success criteria so that the motif-to-match now needs only to be within the top 5 hits returned. it will not necessarily (by MotIV matching strategy) necessarily be the best match.

p.shannon authored on 28/08/2015 15:41:11
Viewa84b875

disabled references to MotIV: the .so for that (separate) package failed to install commented out call to tomtom: that is not routinely available corrected a number of tests for the newly added cisbp database

p.shannon authored on 28/08/2015 04:30:26