chapmanb bcbio.variation issues

chapmanb / bcbio.variation

Toolkit to analyze genomic variation data, built on the GATK with Clojure

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issues

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problem

#35 karthickji opened 1 year ago
0
bcbio.variation-0.2.6-standalone.jar

#34 kadex-ux opened 2 years ago
0
Does not recognize "R" format in VCF header

#33 huguesfontenelle closed 6 years ago
4
using standalone tool on ICGC data.

#32 mortunco closed 8 years ago
1
variant-ensemble error with normalized freebayes file

#31 stsmall closed 8 years ago
2
poor concordance for indels but not SNPs

#30 stsmall closed 8 years ago
1
Update bcbio.variation-0.2.6-standalone.jar link in README.md.

#29 ghost closed 8 years ago
1
Error with variant-utils comparetwo: Structural variant type not handled: :NON_REF

#28 ragans opened 9 years ago
2
support for non human data.

#27 timknut opened 9 years ago
2
bcbio.variation-0.2.1 standalone errors

#26 ssaif opened 9 years ago
1
Cannot cast java.lang.Integer to java.lang.CharSequence

#25 lbeltrame closed 9 years ago
2
format of input files: java.lang.NumberFormatException: For input string:

#24 zeneofa opened 9 years ago
7
"variant-ensemble" command failing from within bcbio-nextgen example pipeline run

#23 nhansen closed 9 years ago
1
Out of bounds error during normalization: freebayes

#22 stsmall opened 9 years ago
7
Illegal base [ ] seen in the allele; seemingly random error

#21 stsmall closed 9 years ago
3
problem with normalization

#20 parlar closed 9 years ago
1
error in normalized somatic calls

#19 parlar closed 9 years ago
4
Error at the validation step

#18 ssaif opened 9 years ago
7
Handling of multi-sample vcf

#17 a113n closed 10 years ago
1
Handling of multiallelic sites

#16 stsmall closed 10 years ago
3
Small correction to doc for vcfSimpleStatsWalker

#15 tzhughes closed 10 years ago
1
could not find the main class bcbio.variation.core

#14 acquarius1990 closed 10 years ago
2
getEnd() / END KEY Error

#13 BioInfo closed 10 years ago
10
ensemble variant calling using bcbio.variation - java error

#12 shalabhsuman closed 10 years ago
5
bcbio.variation using Lein

#11 shalabhsuman closed 11 years ago
5
bcbio variation files

#10 davidhoover closed 10 years ago
3
Add Google Analytics

#9 cjfields closed 11 years ago
1
core.match compile issue

#8 lynaghk closed 12 years ago
0
File duplicates returned by API

#7 lynaghk closed 12 years ago
0
plot-ready-metrics should return the same filename/file-url that is passed in

#6 lynaghk closed 12 years ago
1
Consistent API for file retrieval

#5 lynaghk closed 12 years ago
4
Non-X-prize web functionality?

#4 lynaghk closed 12 years ago
4
Genomespace file retrieval API not working

#3 lynaghk closed 12 years ago
2
https for SSL

#2 cjfields closed 12 years ago
1
Typo fix.

#1 lynaghk closed 12 years ago
1