Ecosyste.ms: Issues

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

GitHub / fritzsedlazeck/survivor issues and pull requests

#223 - simreads fastq format

Issue - State: open - Opened by sagarc88 7 days ago

#222 - get tumor.only.vcf

Issue - State: open - Opened by DayTimeMouse about 1 month ago

#220 - SURVIVOR always skipping 1 vcf file

Issue - State: open - Opened by Anees-caas about 2 months ago

#219 - merge output shows no SV

Issue - State: closed - Opened by Anees-caas 2 months ago - 1 comment

#218 - Index the SURVIVOR VCF file

Issue - State: open - Opened by ywzhang071394 2 months ago

#217 - mangled header

Issue - State: open - Opened by tzvi909 2 months ago - 1 comment

#215 - filtering normal SV from tumor SV

Issue - State: closed - Opened by mdiaz09 6 months ago - 6 comments

#214 - Problem with the Compilation

Issue - State: closed - Opened by rl4940 7 months ago - 2 comments

#213 - Bug found: SV LEN value cutted

Issue - State: open - Opened by leone93 7 months ago

#210 - Clarification on derivation of SV length and type

Issue - State: open - Opened by olivia-gc 8 months ago

#209 - I call it "Nested merge"

Issue - State: open - Opened by HuTaoJiaZiAckerman 8 months ago

#208 - simreads endless runtime

Issue - State: open - Opened by bjhunt-git 8 months ago

#207 - Incorrect SVLEN for translocations in VCF file

Issue - State: open - Opened by ethering 9 months ago

#205 - insertions.fa contains no insertion sequences

Issue - State: open - Opened by ethering 10 months ago - 3 comments

#204 - Merging UKB SV Files

Issue - State: open - Opened by GHawkes93 11 months ago - 1 comment

#202 - Incorrect zero-based VCF file

Issue - State: open - Opened by ethering 11 months ago - 3 comments

#201 - no read support or mapping quality info in VCF

Issue - State: open - Opened by heidihyang 12 months ago - 1 comment

#199 - Not able to merge insertions

Issue - State: open - Opened by beantkapoor786 about 1 year ago - 5 comments

#198 - merge error

Issue - State: open - Opened by Qijie0615 about 1 year ago

#197 - Compatability with Duet

Issue - State: open - Opened by mzwaig about 1 year ago

#196 - INS POS!=END

Issue - State: open - Opened by jasonbhn over 1 year ago

#195 - convertAssemblytics and vcftobed issue

Issue - State: open - Opened by vmukhina over 1 year ago

#194 - Does SURVIVOR work for mobile element insertions?

Issue - State: open - Opened by RSWilson1 over 1 year ago

#192 - simreads in fastq format

Issue - State: closed - Opened by charliechen912ilovbash over 1 year ago - 2 comments

#191 - Expected DR field

Issue - State: open - Opened by Akazhiel over 1 year ago - 2 comments

#190 - Fix FORMAT fields for SNP variant records

Pull Request - State: open - Opened by Krannich479 over 1 year ago - 1 comment

#189 - VCF header fields missing

Issue - State: open - Opened by Krannich479 over 1 year ago - 3 comments

#188 - Are the variants normalized?

Issue - State: closed - Opened by Krannich479 over 1 year ago - 1 comment

#187 - definition of some parameters when simulate SV

Issue - State: closed - Opened by charliechen912ilovbash over 1 year ago - 2 comments

#186 - Losing SV calls when merging files

Issue - State: open - Opened by leonvanmierlo over 1 year ago - 1 comment

#185 - error merging vcfs

Issue - State: closed - Opened by msubirana over 1 year ago

#184 - Simulating SV in PacBio reads

Issue - State: open - Opened by priyambial123 over 1 year ago - 6 comments

#183 - Merge vcf

Issue - State: open - Opened by priyambial123 over 1 year ago - 2 comments

#182 - vcftobed conversion

Issue - State: open - Opened by priyambial123 over 1 year ago

#181 - 'TRA' in bed2vcf

Issue - State: closed - Opened by riasc over 1 year ago - 2 comments

#180 - about the result of SURVIVOR

Issue - State: open - Opened by xiaohuli-45 over 1 year ago

#179 - The INS is not merged.

Issue - State: open - Opened by wangyzh over 1 year ago

#178 - make union

Issue - State: open - Opened by lmanchon over 1 year ago - 2 comments

#177 - simreads long runtime

Issue - State: open - Opened by weilu1998 almost 2 years ago - 2 comments

#176 - Segmentation fault (core dumped) during SURVIVOR merge

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

#175 - NUlls for sample names after merging VCFs

Issue - State: closed - Opened by maxineliu almost 2 years ago - 5 comments

#174 - INFO Field

Issue - State: open - Opened by Akazhiel almost 2 years ago

#173 - SURVIVOR with SNP calls?

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

#172 - SURVIVOR stats not working with Sniffles2 output

Issue - State: closed - Opened by tuannguyen8390 about 2 years ago - 2 comments

#171 - SURVIVOR convertAssemblytics, issue for "Min size to keep"

Issue - State: closed - Opened by Jhuang90 about 2 years ago - 2 comments

#170 - Different results with different order in the vcflist

Issue - State: open - Opened by Yuma248 about 2 years ago - 3 comments

#169 - Simple Dockerfile to run SURVIVOR

Pull Request - State: open - Opened by geocarvalho about 2 years ago

#168 - Error with merging VCF files for trio SVs

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

#167 - Problems with QV after merge

Issue - State: open - Opened by BeaSamma over 2 years ago

#166 - SV coordinates merged VCF from Manta and GRIDSS

Issue - State: open - Opened by tgong1 over 2 years ago - 3 comments

#165 - Deletion calls with positive SVLEN

Issue - State: open - Opened by milesandersonmn over 2 years ago

#164 - the location is changing when merge different software SVs

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

#163 - SURVIVOR didn't merge all SVs into output vcf

Issue - State: open - Opened by pxchen110 over 2 years ago - 2 comments

#162 - Enquiry about merge arguments

Issue - State: open - Opened by yangyxt over 2 years ago - 1 comment

#159 - Invalid END?

Issue - State: open - Opened by bbimber over 2 years ago

#158 - gzip inputs?

Issue - State: open - Opened by bbimber over 2 years ago - 2 comments

#157 - SUPP_VEC tag question

Issue - State: closed - Opened by ahishsujay over 2 years ago

#156 - Question about merging

Issue - State: closed - Opened by NstVasileva almost 3 years ago

#155 - Prioritization of ID in merged VCF

Issue - State: open - Opened by pblaney almost 3 years ago

#154 - different results for stats vs filtered

Issue - State: open - Opened by mattheatley almost 3 years ago

#153 - Problems on SURVIVOR merge

Issue - State: open - Opened by Ceonham almost 3 years ago - 3 comments

#152 - Read SV Length from DEB if present

Pull Request - State: closed - Opened by gariem about 3 years ago

#150 - SVLEN incorrectly printed

Issue - State: open - Opened by pauline-ng about 3 years ago - 1 comment

#149 - merge not working as expected

Issue - State: closed - Opened by kmurphy902 about 3 years ago - 3 comments

#148 - SV simulation

Issue - State: open - Opened by asylvz about 3 years ago - 6 comments

#147 - Merging multiple samples in one vcf

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

#146 - SURVIVOR not reporting DR

Issue - State: open - Opened by Akazhiel over 3 years ago - 3 comments

#145 - merge vcf

Issue - State: open - Opened by pengyan19 over 3 years ago - 2 comments

#144 - details of merge options

Issue - State: open - Opened by edg1983 over 3 years ago - 13 comments

#143 - Issue merging SVs within the same caller

Issue - State: open - Opened by wbooker over 3 years ago - 1 comment

#140 - The detailed merging process

Issue - State: open - Opened by charliechen912ilovbash over 3 years ago

#139 - merging svaba

Issue - State: open - Opened by anoronh4 over 3 years ago - 2 comments

#138 - fail to simulate nested SVs like INV_del or INV_dup

Issue - State: closed - Opened by Jingwen7 over 3 years ago - 8 comments

#137 - reciprocal overlap doesn't work

Issue - State: open - Opened by am8265 over 3 years ago

#136 - About SURVIVOR merge parameter

Issue - State: open - Opened by Xuelei-Dai almost 4 years ago - 2 comments

#134 - SURVIVOR merge not working

Issue - State: closed - Opened by cccnrc about 4 years ago - 2 comments

#133 - Merge SV having position -1

Issue - State: open - Opened by cagaser about 4 years ago - 1 comment

#130 - vcftobed problem

Issue - State: open - Opened by hygine over 4 years ago - 1 comment

#127 - sv merge problem

Issue - State: open - Opened by hygine over 4 years ago - 14 comments

#125 - How to interpret figures and potential error in output from VennDiagram

Issue - State: closed - Opened by moldach over 4 years ago - 2 comments

#122 - SURVIVOR bedtovcf conversion start position indexing

Issue - State: closed - Opened by Caro-Ca over 4 years ago - 9 comments

#101 - Question about merge behavior

Issue - State: closed - Opened by gbdias about 5 years ago - 6 comments

#100 - Loss of variants after merging to union and changed depth

Issue - State: closed - Opened by weishwu about 5 years ago - 9 comments

#99 - SURVIVOR vcftobed conversion start position indexing

Issue - State: open - Opened by info-97 about 5 years ago - 3 comments

#98 - SURVIVOR stats with compressed file

Issue - State: open - Opened by wdecoster about 5 years ago - 1 comment
Labels: enhancement

#97 - Question regarding SV/CNVs during merging

Issue - State: open - Opened by bmlett about 5 years ago - 3 comments