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brentp
/
slivar
genetic variant expressions, annotation, and filtering for great good.
MIT License
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Inquiry for vcf file
#172
dbswls0322
closed
1 month ago
1
pslivar not working
#171
sitems
closed
2 months ago
1
limit to only autosomes
#170
prasundutta87
closed
2 months ago
3
Allelic balance on slivar output
#169
evgenii-s-martirosian
opened
2 months ago
0
splice_polypyrimidine_tract
#168
hadasvolk
opened
3 months ago
1
Solo analysis, phased data
#167
karoliinas
opened
5 months ago
2
error message
#166
monaallouba
opened
6 months ago
7
Trio exome data
#165
monaallouba
opened
6 months ago
0
Wildcards in group subsetting?
#164
phillip-richmond-umoja
opened
7 months ago
3
Feature Request: Diagnostics on Duktape Errors/Warnings
#163
wwgordon
opened
9 months ago
0
Hardware Requirement
#162
SplinterTao
opened
9 months ago
2
gnomAD v4
#161
equinne5
opened
9 months ago
8
Select inherited variants
#160
krukanna
opened
9 months ago
1
filtering on INFO field
#159
equinne5
closed
9 months ago
4
Filter on CSQ numeric, pass if missing value
#158
wwgordon
closed
9 months ago
9
"Unknown Impacts": splice_donor_5th_base, splice_donor_region, splice_polypyrimidine_tract
#157
wwgordon
closed
11 months ago
4
Quickstart should contain info on how to create a pedigree file and what tool is recommended for combining trio VCF into single file
#156
nurmians
closed
1 year ago
1
slivar tsv singleton
#155
equinne5
closed
1 year ago
1
hemizygous variants didn't get picked
#154
lindakjcao
opened
1 year ago
17
Filter on INFO.AF_popmax, pass if missing value
#153
wwgordon
closed
1 year ago
3
unknown phenotype
#152
axz91
opened
1 year ago
5
missing DNMs from Strelka call
#151
weizhu365
closed
1 year ago
6
function trio_denovo
#150
fromtotw
opened
1 year ago
1
gnotate in v0.2.8 can fail to annotate indels >1 bp
#149
seboyden
closed
1 year ago
3
Lower DP threshold for chrX variants in males
#148
williamrowell
closed
1 year ago
6
DP threshold for chrX for males
#147
williamrowell
closed
1 year ago
0
VEP annotations other than impact?
#146
karynne7
opened
1 year ago
13
slivar expr : unaffected patients not selected
#145
gael-millot
closed
1 year ago
8
gnotate: converting BED to VCF
#144
wwgordon
closed
9 months ago
2
compound heterozygote tooling
#143
brentp
opened
1 year ago
3
Issues with group-expr in Mutect2 VCF
#142
fridells51
opened
2 years ago
0
understanding slivar output
#141
prasundutta87
closed
2 years ago
5
argument parser doesn't handle `=` in --arg=value
#140
tedil
opened
2 years ago
5
Errors reported by slivar and no variants
#139
lindakjcao
closed
2 years ago
2
CompHet question
#138
lindakjcao
opened
2 years ago
4
group expression on customized FORMAT field is not working
#137
lindakjcao
closed
2 years ago
12
missing null frequency variants
#136
luceamso
closed
2 years ago
2
make-gnotate, gnomAD filter field.
#135
Elliott77
opened
2 years ago
9
query about PED and trio VCF
#134
prasundutta87
closed
2 years ago
2
CADD score filtering
#133
Elliott77
closed
2 years ago
2
Finding de novo/autosomal recessive structural variants using slivar
#132
prasundutta87
closed
2 years ago
2
Column labels in annotation files
#131
priyambial123
closed
2 years ago
6
SIGSEGV: Illegal storage access. (Attempt to read from nil?)
#130
zeliasoo
closed
2 years ago
3
Missing de novo variant
#129
krukanna
opened
2 years ago
2
how can I extract \xb3 in slivar?
#128
luceamso
closed
2 years ago
8
Slivar tsv functionality w/o family structure
#127
nbalanda23
opened
2 years ago
4
Using SLIVAR for filtering variants
#126
dr-ashu-geno
closed
2 years ago
1
extract shared variant
#125
luceamso
closed
2 years ago
6
trio and family expr results
#124
luceamso
opened
2 years ago
6
Compound het allele segregation in multi-generational pedigree with multiple affecteds
#123
mvelinder
opened
2 years ago
2
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