Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / illumina/strelka issues and pull requests

#49 - No variants reported from RNA-seq data

Issue - State: closed - Opened by komalsrathi over 6 years ago - 4 comments

#49 - No variants reported from RNA-seq data

Issue - State: closed - Opened by komalsrathi over 6 years ago - 4 comments

#48 - Different results after upgrading from Strelka2.7.1 to 2.9.2

Issue - State: closed - Opened by makarov-mskcc over 6 years ago - 3 comments

#48 - Different results after upgrading from Strelka2.7.1 to 2.9.2

Issue - State: closed - Opened by makarov-mskcc over 6 years ago - 3 comments

#47 - Mulit-allelic sites

Issue - State: open - Opened by Thatguy027 over 6 years ago - 5 comments

#47 - Mulit-allelic sites

Issue - State: open - Opened by Thatguy027 over 6 years ago - 5 comments

#46 - about Hard filtering in strelka2

Issue - State: closed - Opened by Maojie6509 over 6 years ago - 1 comment

#46 - about Hard filtering in strelka2

Issue - State: closed - Opened by Maojie6509 over 6 years ago - 1 comment

#45 - Stuck on IndelErrorModel::checkSampleIndex

Issue - State: open - Opened by diaamayaram over 6 years ago - 1 comment

#45 - Stuck on IndelErrorModel::checkSampleIndex

Issue - State: open - Opened by diaamayaram over 6 years ago - 1 comment

#44 - different result after cut primers

Issue - State: closed - Opened by ray1919 over 6 years ago - 4 comments

#44 - different result after cut primers

Issue - State: closed - Opened by ray1919 over 6 years ago - 4 comments

#43 - about proper pair filtering in strelka2

Issue - State: closed - Opened by ShannonDaddy over 6 years ago - 1 comment

#43 - about proper pair filtering in strelka2

Issue - State: closed - Opened by ShannonDaddy over 6 years ago - 1 comment

#42 - Can't find configure when installing from source

Issue - State: closed - Opened by komalsrathi over 6 years ago - 3 comments

#42 - Can't find configure when installing from source

Issue - State: closed - Opened by komalsrathi over 6 years ago - 3 comments

#41 - demo directory not present with conda installation

Issue - State: closed - Opened by komalsrathi over 6 years ago - 4 comments

#41 - demo directory not present with conda installation

Issue - State: closed - Opened by komalsrathi over 6 years ago - 4 comments

#39 - big genome problem

Issue - State: closed - Opened by lw3259111 over 6 years ago - 4 comments

#39 - big genome problem

Issue - State: closed - Opened by lw3259111 over 6 years ago - 4 comments

#38 - Stuck on CallGenome+callGenomeSegment_chromId_024_chrM_0000

Issue - State: closed - Opened by danielbruhm over 6 years ago - 4 comments

#38 - Stuck on CallGenome+callGenomeSegment_chromId_024_chrM_0000

Issue - State: closed - Opened by danielbruhm over 6 years ago - 4 comments

#37 - Recall germline variants error : Assertion `index < size()' failed

Issue - State: closed - Opened by Thatguy027 over 6 years ago - 16 comments
Labels: bug

#37 - Recall germline variants error : Assertion `index < size()' failed

Issue - State: closed - Opened by Thatguy027 over 6 years ago - 16 comments
Labels: bug

#36 - Assertion `callRegion.end > callRegion.begin' failed

Issue - State: closed - Opened by BenoitFiset over 6 years ago - 10 comments

#36 - Assertion `callRegion.end > callRegion.begin' failed

Issue - State: closed - Opened by BenoitFiset over 6 years ago - 10 comments

#35 - Filtering variants

Issue - State: closed - Opened by dietmarfdz almost 7 years ago - 1 comment

#35 - Filtering variants

Issue - State: closed - Opened by dietmarfdz almost 7 years ago - 1 comment

#34 - Detect mosaic with strelka?

Issue - State: closed - Opened by dietmarfdz almost 7 years ago - 4 comments

#34 - Detect mosaic with strelka?

Issue - State: closed - Opened by dietmarfdz almost 7 years ago - 4 comments

#33 - Low QUAL yet PASS

Issue - State: closed - Opened by KwatMDPhD almost 7 years ago - 4 comments

#33 - Low QUAL yet PASS

Issue - State: closed - Opened by KwatMDPhD almost 7 years ago - 4 comments

#32 - Strelka2 crashes on targeted sequencing experiment

Issue - State: closed - Opened by PedroBarbosa almost 7 years ago - 8 comments

#32 - Strelka2 crashes on targeted sequencing experiment

Issue - State: closed - Opened by PedroBarbosa almost 7 years ago - 8 comments

#31 - Compile error when building version 2.9.0

Issue - State: closed - Opened by dancooke almost 7 years ago - 6 comments

#31 - Compile error when building version 2.9.0

Issue - State: closed - Opened by dancooke almost 7 years ago - 6 comments

#30 - Overlapping read pairs are double counted

Issue - State: open - Opened by dariober almost 7 years ago - 1 comment

#30 - Overlapping read pairs are double counted

Issue - State: open - Opened by dariober almost 7 years ago - 1 comment

#29 - can strelka2 export variants in halplotype form?

Issue - State: open - Opened by ShannonDaddy almost 7 years ago - 2 comments

#29 - can strelka2 export variants in halplotype form?

Issue - State: open - Opened by ShannonDaddy almost 7 years ago - 2 comments

#28 - SGT and ref/alt don't match

Issue - State: open - Opened by mwe-bixeng almost 7 years ago

#28 - SGT and ref/alt don't match

Issue - State: open - Opened by mwe-bixeng almost 7 years ago

#27 - Unknown htslib error value in sam_read1

Issue - State: closed - Opened by lw3259111 almost 7 years ago - 2 comments

#27 - Unknown htslib error value in sam_read1

Issue - State: closed - Opened by lw3259111 almost 7 years ago - 2 comments

#26 - Confusing version numbers (strelka "1")

Issue - State: closed - Opened by smondet almost 7 years ago - 2 comments
Labels: question

#26 - Confusing version numbers (strelka "1")

Issue - State: closed - Opened by smondet almost 7 years ago - 2 comments
Labels: question

#25 - Trouble reading VCF file with --ploidy option

Issue - State: closed - Opened by afkoeppel about 7 years ago - 3 comments

#25 - Trouble reading VCF file with --ploidy option

Issue - State: closed - Opened by afkoeppel about 7 years ago - 3 comments

#24 - Missing tags in VCF header

Issue - State: closed - Opened by patrickturko about 7 years ago - 2 comments

#24 - Missing tags in VCF header

Issue - State: closed - Opened by patrickturko about 7 years ago - 2 comments

#23 - Error running demo germline data

Issue - State: closed - Opened by dietmarfdz about 7 years ago - 2 comments

#23 - Error running demo germline data

Issue - State: closed - Opened by dietmarfdz about 7 years ago - 2 comments

#22 - error about genome size and bad lexical cast when using a reference genome larger than 2^32

Issue - State: closed - Opened by JingzhX about 7 years ago - 2 comments
Labels: bug

#22 - error about genome size and bad lexical cast when using a reference genome larger than 2^32

Issue - State: closed - Opened by JingzhX about 7 years ago - 2 comments
Labels: bug

#21 - Detecting indels > 50 bases in length

Issue - State: closed - Opened by mozack about 7 years ago - 6 comments
Labels: bug

#21 - Detecting indels > 50 bases in length

Issue - State: closed - Opened by mozack about 7 years ago - 6 comments
Labels: bug

#19 - Higher number of somatic variants on strelka2 vs strelka

Issue - State: closed - Opened by ssrinis about 7 years ago - 2 comments

#19 - Higher number of somatic variants on strelka2 vs strelka

Issue - State: closed - Opened by ssrinis about 7 years ago - 2 comments

#18 - Default sample names are not numbered as documented

Issue - State: closed - Opened by ctsa about 7 years ago
Labels: bug

#18 - Default sample names are not numbered as documented

Issue - State: closed - Opened by ctsa about 7 years ago
Labels: bug

#17 - SAMPLE in multisample calling

Issue - State: closed - Opened by colindaven about 7 years ago - 6 comments

#17 - SAMPLE in multisample calling

Issue - State: closed - Opened by colindaven about 7 years ago - 6 comments

#16 - Provide genotypes (GT) for somatic variant calls

Issue - State: open - Opened by chapmanb about 7 years ago - 9 comments

#16 - Provide genotypes (GT) for somatic variant calls

Issue - State: open - Opened by chapmanb about 7 years ago - 9 comments

#15 - Realigned BAM output producing an error

Issue - State: closed - Opened by poxon about 7 years ago - 2 comments

#15 - Realigned BAM output producing an error

Issue - State: closed - Opened by poxon about 7 years ago - 2 comments

#14 - Tumour-only calling?

Issue - State: open - Opened by ameynert about 7 years ago - 4 comments

#14 - Tumour-only calling?

Issue - State: open - Opened by ameynert about 7 years ago - 4 comments

#13 - "Access Denied" when downloading in Silico Mixtures BAMs

Issue - State: closed - Opened by gnarzisi about 7 years ago - 5 comments

#13 - "Access Denied" when downloading in Silico Mixtures BAMs

Issue - State: closed - Opened by gnarzisi about 7 years ago - 5 comments

#12 - "PASS" somatic variant has no supporting reads

Issue - State: open - Opened by likelet over 7 years ago - 5 comments

#12 - "PASS" somatic variant has no supporting reads

Issue - State: open - Opened by likelet over 7 years ago - 5 comments

#11 - Question: Does Tumor / Normal Mode Call Germline Mutations as Well?

Issue - State: closed - Opened by erichpeterson over 7 years ago - 1 comment

#11 - Question: Does Tumor / Normal Mode Call Germline Mutations as Well?

Issue - State: closed - Opened by erichpeterson over 7 years ago - 1 comment

#10 - Allow ambiguous basecalls from input reads, treat ambiguous basecalls as 'N's.

Issue - State: open - Opened by ctsa over 7 years ago
Labels: enhancement

#10 - Allow ambiguous basecalls from input reads, treat ambiguous basecalls as 'N's.

Issue - State: open - Opened by ctsa over 7 years ago
Labels: enhancement

#9 - Error on reads containing 'Ns'?

Issue - State: closed - Opened by malachig over 7 years ago - 22 comments

#9 - Error on reads containing 'Ns'?

Issue - State: closed - Opened by malachig over 7 years ago - 22 comments

#8 - 'force' call for every position in provided bed file

Issue - State: closed - Opened by chrausch over 7 years ago - 1 comment

#8 - 'force' call for every position in provided bed file

Issue - State: closed - Opened by chrausch over 7 years ago - 1 comment

#7 - All somatic SNVs filtered for some reason (mostly as "LowEVS" or "IRC")

Issue - State: closed - Opened by malachig over 7 years ago - 2 comments

#7 - All somatic SNVs filtered for some reason (mostly as "LowEVS" or "IRC")

Issue - State: closed - Opened by malachig over 7 years ago - 2 comments

#6 - Difference between strelka2 and strelka1

Issue - State: closed - Opened by mingyi-wang over 7 years ago - 2 comments

#6 - Difference between strelka2 and strelka1

Issue - State: closed - Opened by mingyi-wang over 7 years ago - 2 comments

#5 - Can strelka call somatic variants for specified regions?

Issue - State: closed - Opened by mingyi-wang over 7 years ago - 2 comments

#5 - Can strelka call somatic variants for specified regions?

Issue - State: closed - Opened by mingyi-wang over 7 years ago - 2 comments

#4 - Missing contigs in BAM files

Issue - State: open - Opened by mingyi-wang over 7 years ago - 1 comment

#3 - Too many somatic mutations in the vcf output

Issue - State: closed - Opened by ysbioinfo over 7 years ago - 9 comments

#2 - starling2 segfault

Issue - State: closed - Opened by przemekl over 7 years ago - 3 comments

#1 - add option to supply a list of regions instead of one at a time

Issue - State: closed - Opened by malachig almost 8 years ago - 3 comments
Labels: enhancement