GitHub - BrooksLabUCSC/juncBASE: Junction Based Analysis of Splicing Events for RNA-Seq

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Junction Based Analysis of Splicing Events for RNA-Seq

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Name		Name	Last commit message	Last commit date
Latest commit History 238 Commits
opus7		opus7
other_scripts		other_scripts
MANUAL.pdf		MANUAL.pdf
adjust_KN_flag.py		adjust_KN_flag.py
buildVirtualReference_median.py		buildVirtualReference_median.py
build_DB_FromGTF.py		build_DB_FromGTF.py
clusterASExons2.py		clusterASExons2.py
combine_clusterASExons2_by_chr.py		combine_clusterASExons2_by_chr.py
combine_createAS_CountTables_by_chr.py		combine_createAS_CountTables_by_chr.py
compareJuncBASETables.py		compareJuncBASETables.py
compareSampleSets.py		compareSampleSets.py
compareSampleSets_getASEvents.py		compareSampleSets_getASEvents.py
compareSampleSets_permutation.py		compareSampleSets_permutation.py
compareSampleSets_permutation_kmeans.py		compareSampleSets_permutation_kmeans.py
convert_junction_sam.py		convert_junction_sam.py
coordReadCounts.py		coordReadCounts.py
coord_helperFunctions.py		coord_helperFunctions.py
createAS_CountTables.py		createAS_CountTables.py
createPseudoSample.py		createPseudoSample.py
disambiguate_junctions.py		disambiguate_junctions.py
extractConfidentNNjunctions.py		extractConfidentNNjunctions.py
fisherTest_exclusionInclusion.py		fisherTest_exclusionInclusion.py
getASEventReadCounts.py		getASEventReadCounts.py
getIntronRetentionEvents.py		getIntronRetentionEvents.py
getSimpleAS.py		getSimpleAS.py
getSpecificSequences.py		getSpecificSequences.py
helperFunctions.py		helperFunctions.py
intron_exon_jctn_counts.py		intron_exon_jctn_counts.py
makeNonRedundantAS.py		makeNonRedundantAS.py
merge_by_chr_juncBASE_junction_file.py		merge_by_chr_juncBASE_junction_file.py
pairwise_fishers_test_getASEvents_w_reference.py		pairwise_fishers_test_getASEvents_w_reference.py
plotEntropyScores.py		plotEntropyScores.py
preProcess_getASEventReadCounts.py		preProcess_getASEventReadCounts.py
preProcess_getASEventReadCounts_by_chr.py		preProcess_getASEventReadCounts_by_chr.py
preProcess_getASEventReadCounts_by_chr_step2.py		preProcess_getASEventReadCounts_by_chr_step2.py
preProcess_getASEventReadCounts_step2.py		preProcess_getASEventReadCounts_step2.py
preProcess_getASEventReadCounts_step3.py		preProcess_getASEventReadCounts_step3.py
pysqlite_wrap.py		pysqlite_wrap.py
run_buildVirtualReference.py		run_buildVirtualReference.py
run_build_DB_FromGTF_by_chr.py		run_build_DB_FromGTF_by_chr.py
run_clusterASExons2_by_chr.py		run_clusterASExons2_by_chr.py
run_createAS_CountTables.py		run_createAS_CountTables.py
run_getASEventReadCounts_multiSample.py		run_getASEventReadCounts_multiSample.py
run_preProcess_by_chr_step1.py		run_preProcess_by_chr_step1.py
run_preProcess_step3_by_chr.py		run_preProcess_step3_by_chr.py
sequence_wrap.py		sequence_wrap.py