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fix flake8 Lint #36: Commit 2232ea9 pushed by cafelton
10s dev
dev
10s
clean up code in variant calling a bit Lint #35: Commit 006dd6a pushed by cafelton
15s dev
dev
15s
update var detection, improve precision with filter tuning Lint #34: Commit 4eca549 pushed by cafelton
28s dev
dev
28s
add variant (SNV and indel) caller to codebase, along with some basic… Lint #33: Commit 9d15b81 pushed by cafelton
14s dev
dev
14s
update alleles - better combining of phase sets and allele groups aft… Lint #32: Commit fe5a710 pushed by cafelton
11s dev
dev
11s
tome: fix issue with intermediate read map files Lint #31: Commit 24b1916 pushed by cafelton
15s dev
dev
15s
rewrite isoalleles to use alleles output Lint #30: Commit 3a6daea pushed by cafelton
18s dev
dev
18s
update alleles to provide phase sets, also output homozygous vars Lint #29: Commit 37db0bd pushed by cafelton
17s dev
dev
17s
clean up tests Lint #28: Commit a2eba44 pushed by cafelton
20s dev
dev
20s
move code around so can delete old variantmodels and remove old predi… Lint #27: Commit 2a459c5 pushed by cafelton
17s dev
dev
17s
fix single exon test polyA issue Lint #26: Commit b4b1a99 pushed by cafelton
12s dev
dev
12s
introduce new allelotyping methods, add aaseq to transcripts, add tra… Lint #25: Commit ed94aec pushed by cafelton
11s dev
dev
11s
fix flake8 Lint #24: Commit 51fa32f pushed by cafelton
14s dev
dev
14s
added samples column to bed files, updated combine for new ids, fixed… Lint #23: Commit 61b2edb pushed by cafelton
12s dev
dev
12s
add bed columns for fusion info, also improve fusion nongenic locus i… Lint #22: Commit fe288f2 pushed by cafelton
17s dev
dev
17s
Merge pull request #2 from diekhans/colette-dev Lint #21: Commit 8d3ad86 pushed by cafelton
18s dev
dev
18s
Minor change to FlairBed, fixed predictProductivity name collision Lint #20: Pull request #2 opened by diekhans
13s diekhans:colette-dev
diekhans:colette-dev
13s
Merge branch 'dev' of github.com:BrooksLabUCSC/flair into dev Lint #19: Commit ad9760c pushed by cafelton
14s dev
dev
14s
integrate FlairBed class into transcriptome, predictProductivity, and… Lint #18: Commit e55705d pushed by cafelton
14s dev
dev
14s
Merge pull request #1 from diekhans/colette-dev Lint #17: Commit 3c1cf27 pushed by cafelton
15s dev
dev
15s
fix bug with NGO transcript thickStart/End Lint #13: Commit 432a651 pushed by cafelton
12s dev
dev
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add back in trust_ends, add test for it Lint #12: Commit e6f5767 pushed by cafelton
11s dev
dev
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incorporate productivity prediction into transcriptome (required slig… Lint #11: Commit 88d6823 pushed by cafelton
14s dev
dev
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test and further improve count_sam_transcripts Lint #10: Commit 6def584 pushed by cafelton
15s dev
dev
15s
change gene ID handling to use hashes, clean up final IDs Lint #9: Commit 6941e6e pushed by cafelton
22s dev
dev
22s