Illumina hap.py issues - Githubissues

Illumina / hap.py

Haplotype VCF comparison tools

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--write-counts/--no-write-counts simplify

#142 leipzig closed 3 years ago
0
Code Broken : Hap.py showing error on vcf files

#141 aditya-sarkar441 opened 3 years ago
0
The command given in introduction not working

#140 aditya-sarkar441 closed 2 years ago
3
hap.py version on dockerhub outdated

#139 valleema opened 3 years ago
0
Error: "Fasta file /opt/hap.py-data/hg19.fa is not indexed"

#138 valentyn-dev closed 3 years ago
2
Bioconda Package Install Bug

#137 jkalleberg opened 3 years ago
3
One of the preprocess jobs failed. Cannot query reference sequence

#136 jcs3632 closed 3 years ago
1
Fixing argument namespace issue introduced with hguturu:hg-fix-pre-convert-gvcf

#135 nate-d-olson closed 3 years ago
1
0% TPs when comparing pepper & freebayes vcf files with yeast S228C ref

#134 KewinOgink closed 3 years ago
5
Query.FP does not equal het +homalt or BD=FP

#133 sr-bentley opened 3 years ago
0
Installation issues in Centos7

#132 KrithikaSubramanian closed 3 years ago
1
Different result with som.py/hap.py and just compare[chrom-pos-alt-ref] paire

#131 LeiHaoa opened 3 years ago
0
--preserve-info tag not compatible with vcfeval

#130 MBekritsky opened 3 years ago
0
Spurious warning: too many AD fields

#129 RWilton opened 4 years ago
0
blocksplit failing, is there a workaround?

#128 umylny-dls opened 4 years ago
1
installation error

#127 cccnrc opened 4 years ago
0
generating summary from a subset of happy output vcf file

#126 gkaur opened 4 years ago
0
Is the QQ value in the QUAL field of the VCF file by caller???

#125 BIjoy92 opened 4 years ago
0
pre.py errors when VCF includes HLA contigs from hg38

#124 mken418 opened 4 years ago
1
NaN values in the result

#123 genespectrum closed 4 years ago
0
pre.py for normalization errors

#122 christinafliege opened 4 years ago
3
returned non-zero exit status 1

#121 a00101 opened 4 years ago
4
what is "BD=N" represent ?

#120 junyanzho opened 4 years ago
1
Detect FP and FN when compare identical vcf-files

#119 NVSmirnova opened 4 years ago
3
How to run Singularity

#118 moldach opened 4 years ago
6
-T option not working: "unknown file type"

#117 ElisabetThomsen closed 4 years ago
1
hap.py failing with errors

#116 m-lazarova opened 4 years ago
1
hap.py comparison with query SNP.vcf

#115 junyanzho opened 4 years ago
1
build failed and docker is old version....

#114 NickyPan opened 4 years ago
0
changed pre.py params to work with single gvcf

#113 hguturu closed 3 years ago
7
The version of ${HAPPY}/bin/bcftools is too old?

#112 nukaemon opened 4 years ago
0
Faulty variant test fails

#111 tirohia closed 4 years ago
2
Added missing bcftools invocation to command line for region processing

#110 dskola closed 4 years ago
0
Error running BCFTOOLS

#109 DBS-Max closed 4 years ago
3
Issue with installation: ** No targets specified and no makefile found. Stop."

#108 SonicNight opened 4 years ago
2
std::bad_alloc on small-size reference and VCFs

#107 nicolaprezza opened 4 years ago
0
AttributeError when running pre.py directly

#106 ScottMastro closed 3 years ago
0
Undefined output_ vcf when using vcfeval

#105 DiDeoxy opened 4 years ago
0
Exit Status 140

#104 shyama-mama opened 4 years ago
0
Segmentation fault in qfy.quantify

#103 caspargross closed 1 year ago
0
How to deal with the Error messages using hap.py with VFC in example catalogue

#102 GeorgeBGM opened 4 years ago
1
Cannot query reference sequence at....

#101 cvlvxi opened 4 years ago
1
Merge content from internal repo for release

#100 dskola closed 4 years ago
0
Option --no-rebuild-external doesn't exist

#99 serge2016 opened 5 years ago
1
ERROR preprocess: vcf.c:3472: bcf_update_format: Assertion `!fmt->p_free' failed.

#98 serge2016 opened 5 years ago
7
Add bin directory to PATH

#97 serge2016 opened 5 years ago
0
Java installation failuture

#96 serge2016 opened 5 years ago
0
Post installation validation test fails

#95 adigorla opened 5 years ago
6
Target region specification: weird observation

#94 ghost opened 5 years ago
0
ERROR [stderr] Added region file '/tmp/tmpBkykHu.bed' as 'CONF'

#93 24natasya opened 5 years ago
0

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