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Illumina
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GTCtoVCF
Script to convert GTC/BPM files to VCF
Apache License 2.0
41
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30
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Empty ALT genotypes?
#81
rajwanir
opened
4 months ago
1
Tool assumptions and behaviour
#80
rajwanir
opened
5 months ago
6
updates link from ACLI to DRAGEN Array
#79
jzieve
closed
5 months ago
0
Any workaround for missing RefStrand and SourceSeq column in the manifest?
#78
rajwanir
closed
5 months ago
7
SB calculation
#77
marissa97
opened
1 year ago
1
Any experience about GQ settings
#76
AliceCheng7
opened
1 year ago
1
adds semi-archived message to README
#75
jzieve
closed
1 year ago
0
Now supports extracting gencall scores (GCALL) as real numbers
#74
Ahhgust
opened
1 year ago
5
Docker container
#73
stephenturner
closed
2 years ago
5
ERROR - Reference is missing entry for chromosome 3
#72
HoneeeyBee
closed
2 years ago
2
Python3 support
#71
Stikus
opened
2 years ago
1
Readme py2 req
#70
jjzieve
closed
2 years ago
3
VCF REF column outputting in bytes instead of string
#69
rarsenal
closed
2 years ago
3
GQ score clarification
#68
Derrup
opened
3 years ago
3
Bus error when converting GTC to VCF
#67
khzhu
closed
3 years ago
7
SourceSeq validation failures should be skipped instead of erroring out
#66
jjzieve
opened
4 years ago
0
Python3 Question
#65
tbrunetti
closed
4 years ago
3
Reference not detected if lowercase characters
#64
BiKC
opened
4 years ago
4
Master
#63
jjzieve
closed
4 years ago
0
download_reference script has broken links
#62
jjzieve
closed
4 years ago
2
Release/1.2.1
#61
jjzieve
closed
4 years ago
0
Next release
#60
varuna-sd
closed
4 years ago
2
Unclear Error message
#59
brianyiktaktsui
opened
4 years ago
1
Handles case where indels with opposite orientation (e.g. [I/D] vs. […
#58
jjzieve
closed
4 years ago
0
Bug/baf mnv handling
#57
jjzieve
closed
4 years ago
0
Addresses case where ALT allele(s) are one base, hence an indel and n…
#56
jjzieve
closed
4 years ago
0
Unable to run download_reference.sh on Mac
#55
biying-orig3n
closed
4 years ago
3
download_reference.sh is outdated
#54
moranr7
closed
4 years ago
3
Feature/change gq type
#53
jjzieve
closed
4 years ago
1
Feature/change gq type
#52
jjzieve
closed
4 years ago
0
GQ type is "String" instead of "Float"
#51
kmhernan
closed
4 years ago
1
Replace ID in output VCF with `--id` option
#50
stephenturner
opened
5 years ago
0
Illumina Generated Manifest has no RefStrand column
#49
tbrunetti
opened
5 years ago
5
GTC parser error : All GT values in converted vcf are './.'
#48
gezthxbio
closed
5 years ago
4
Applies change from BeadArrayFiles repository
#47
jjzieve
closed
4 years ago
0
Merge pull request #44 from Illumina/release/1.2.0
#46
jjzieve
closed
5 years ago
0
Release/1.2.0
#45
jjzieve
closed
5 years ago
0
Release/1.2.0
#44
jjzieve
closed
5 years ago
3
Version 1.2.0
#43
jjzieve
closed
5 years ago
1
Precision difference when updating numpy versions
#42
jjzieve
opened
5 years ago
0
Additional fields
#41
jjzieve
closed
5 years ago
9
Add dockerfile
#40
jjzieve
closed
2 years ago
1
Uses GNU and OSX compatible mktemp
#39
jjzieve
closed
4 years ago
1
GTC converter - WARNING - Reference is missing entry for chromosomes
#38
cbiOPela
opened
5 years ago
8
.vcf format for BaseSpace Variant Interpreter?
#37
cbiOPela
closed
5 years ago
0
Update download_reference.sh
#36
GvandeSteeg
closed
5 years ago
1
scripts/download_reference.sh fails when missing `realpath`
#35
GvandeSteeg
closed
5 years ago
0
Typo in comment on BPMRecord
#34
eyherabh
closed
5 years ago
0
Possible error in comment on last test
#33
eyherabh
closed
5 years ago
0
About ImportError: No module named vcf.parser
#32
JeonHyungJin
closed
5 years ago
5
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