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lib
test
- common
- decompose_blocksub
- normalize
- ref
.gitignore
.travis.yml
LICENSE
Makefile
README.md
ahmm.cpp
ahmm.h
align.cpp
align.h
allele.cpp
allele.h
annotate_1000g.cpp
annotate_1000g.h
annotate_dbsnp_rsid.cpp
annotate_dbsnp_rsid.h
annotate_indels.cpp
annotate_indels.h
annotate_regions.cpp
annotate_regions.h
annotate_variants.cpp
annotate_variants.h
augmented_bam_record.cpp
augmented_bam_record.h
bam_ordered_reader.cpp
bam_ordered_reader.h
bcf_genotyping_buffered_reader.cpp
bcf_genotyping_buffered_reader.h
bcf_ordered_reader.cpp
bcf_ordered_reader.h
bcf_ordered_writer.cpp
bcf_ordered_writer.h
bcf_synced_reader.cpp
bcf_synced_reader.h
bed.cpp
bed.h
candidate_motif_picker.cpp
candidate_motif_picker.h
candidate_region_extractor.cpp
candidate_region_extractor.h
cat.cpp
cat.h
chmm.cpp
chmm.h
circular_buffer.cpp
circular_buffer.h
compute_concordance.cpp
compute_concordance.h
compute_features.cpp
compute_features.h
compute_features2.cpp
compute_features2.h
config.cpp
config.h
consolidate.cpp
consolidate.h
consolidate_vntrs.cpp
consolidate_vntrs.h
construct_probes.cpp
construct_probes.h
decompose.cpp
decompose.h
decompose2.cpp
decompose2.h
decompose_blocksub.cpp
decompose_blocksub.h
discover.cpp
discover.h
discover2.cpp
discover2.h
estimate.cpp
estimate.h
estimator.cpp
estimator.h
filter.cpp
filter.h
flank_detector.cpp
flank_detector.h
fuzzy_aligner.cpp
fuzzy_aligner.h
gencode.cpp
gencode.h
genome_interval.cpp
genome_interval.h
genotype.cpp
genotype.h
genotype2.cpp
genotype2.h
genotyping_record.cpp
genotyping_record.h
hfilter.cpp
hfilter.h
hts_utils.cpp
hts_utils.h
index.cpp
index.h
interval.cpp
interval.h
interval_tree.cpp
interval_tree.h
large_motif_tree.cpp
large_motif_tree.h
lfhmm.cpp
lfhmm.h
lhmm.cpp
lhmm.h
lhmm1.cpp
lhmm1.h
log_tool.cpp
log_tool.h
main.cpp
merge.cpp
merge.h
merge_candidate_variants.cpp
merge_candidate_variants.h
merge_candidate_variants2.cpp
merge_candidate_variants2.h
motif_map.cpp
motif_map.h
motif_tree.cpp
motif_tree.h
multi_partition.cpp
multi_partition.h
needle.cpp
needle.h
normalize.cpp
normalize.h
ordered_bcf_overlap_matcher.cpp
ordered_bcf_overlap_matcher.h
ordered_region_overlap_matcher.cpp
ordered_region_overlap_matcher.h
partition.cpp
partition.h
paste.cpp
paste.h
pedigree.cpp
pedigree.h
peek.cpp
peek.h
pileup.cpp
pileup.h
pregex.cpp
pregex.h
profile_afs.cpp
profile_afs.h
profile_chm1.cpp
profile_chm1.h
profile_chrom.cpp
profile_chrom.h
profile_fic_hwe.cpp
profile_fic_hwe.h
profile_hwe.cpp
profile_hwe.h
profile_indels.cpp
profile_indels.h
profile_len.cpp
profile_len.h
profile_mendelian.cpp
profile_mendelian.h
profile_na12878.cpp
profile_na12878.h
profile_snps.cpp
profile_snps.h
profile_vntrs.cpp
profile_vntrs.h
program.cpp
program.h
reference_sequence.cpp
reference_sequence.h
remove_overlap.cpp
remove_overlap.h
repeat_tract_detector.cpp
repeat_tract_detector.h
rfhmm.cpp
rfhmm.h
rminfo.cpp
rminfo.h
rpartition.cpp
rpartition.h
seq.cpp
seq.h
sort.cpp
sort.h
subset.cpp
subset.h
sv_tree.cpp
sv_tree.h
tbx_ordered_reader.cpp
tbx_ordered_reader.h
test.cpp
test.h
union_variants.cpp
union_variants.h
uniq.cpp
uniq.h
utils.cpp
utils.h
validate.cpp
validate.h
variant.cpp
variant.h
variant_filter.cpp
variant_filter.h
variant_manip.cpp
variant_manip.h
view.cpp
view.h
vntr.cpp
vntr.h
vntr_annotator.cpp
vntr_annotator.h
vntrize.cpp
vntrize.h
xcmp.cpp
xcmp.h

test

atks

updated htslib, test, misc.

Jul 28, 2015

c070d74 · Jul 28, 2015

History

This branch is 919 commits ahead of, 266 commits behind pkrusche/vt:master.

Name	Name	Last commit message	Last commit date
parent directory ..
common	common	test mechanism changes	May 27, 2015
decompose_blocksub	decompose_blocksub	updated htslib, test, misc.	Jul 28, 2015
normalize	normalize	fixed new output for testing	Jul 2, 2015
ref	ref	modified testing mechanism, commonized files, added test for normalize	May 27, 2015

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