gymreklab GangSTR issues

gymreklab / GangSTR

A tool for profiling long STRs from short reads

GNU General Public License v2.0

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issues

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bed file format

#126 dwill023 opened 3 months ago
0
Annotate the output with STRbase/13 CORDIS core

#125 csittz opened 8 months ago
0
Can't get past htslib update step when trying to build GangSTR

#124 jsquaredosquared closed 8 months ago
1
chr_make_reference.sh: line 11: =X: command not found

#123 kimi-du-bio opened 11 months ago
0
[GangSTR-2.5.0] ERROR: Error extracting read length

#122 jackzhong1995 opened 11 months ago
1
generate str_info_file

#121 sy8645 opened 1 year ago
0
local realignment in GangSTR

#120 kirannai opened 1 year ago
0
Help : Genotyping vcf results (loci call & Realignment resutls)

#119 kirannai opened 1 year ago
0
Allowing mismatch in Long str

#118 DomManou opened 2 years ago
0
Alleles reported as numbers rather than bases in output VCF

#117 alexpiper opened 2 years ago
0
Support for unequal read lengths in BAM

#116 dboceck opened 2 years ago
0
MarkDuplicates reads filter

#115 zhpn1024 opened 2 years ago
0
Issue about "Not enough reads extracted. Skipping locus.."

#114 microtan0902 opened 2 years ago
1
error after trimming sequences

#113 CocoMlle opened 2 years ago
0
HELP

#112 zhangjinpengGithub opened 2 years ago
3
Help with understanding GGL values

#111 hchetia closed 2 years ago
4
Warning in Gangstr run

#110 hchetia closed 2 years ago
3
genome index

#109 hchetia closed 3 years ago
1
Read group

#108 hchetia closed 3 years ago
1
[GangSTR-2.5.0] ERROR: Error extracting read length

#107 MeiShu00 closed 3 years ago
8
str::out_of_range

#106 mvcakir opened 3 years ago
2
Downstream filtering for haploid TRs

#105 Owuorgpo opened 3 years ago
4
GangSTR --help outputs error

#104 MeiShu00 opened 3 years ago
0
GangSTR fails on small input files

#103 bkohrn opened 3 years ago
3
Cmake branch

#102 nmmsv closed 3 years ago
0
Interesting Compiling issue

#101 MrDotOne closed 3 years ago
6
Crash soon after started

#100 huanglu2018 closed 3 years ago
1
[GangSTR-2.4.6] ERROR: No read group specified in BAM file

#99 archana433 closed 3 years ago
1
munmap_chunk(): invalid pointer

#98 mvcakir closed 3 years ago
4
Fix segfault on Ubuntu 20.04

#97 jmarshall closed 3 years ago
1
Reference .bed file difference

#96 apredeus closed 3 years ago
2
Expansions detection

#95 leorebensabath closed 3 years ago
3
Merging develop

#94 nmmsv closed 3 years ago
0
Crashing something about size

#93 sequinstandards closed 3 years ago
1
Seg fault error on Ubuntu 20.04

#92 ileenamitra closed 3 years ago
6
REPCN number is incorrect for x chromosome

#91 LiterallyUniqueLogin opened 4 years ago
0
Add sex chr support

#90 nmmsv closed 4 years ago
1
Cannot build with the latest version

#89 Z-Zen closed 4 years ago
4
Using GangSTR on HiFi PacBio reads

#88 olekto closed 4 years ago
1
What is the total processed reads per sample for a region?

#87 ontalin closed 4 years ago
3
ERROR: Not enough reads for [sample ID]. Please set insert size distribution manually.

#86 shiyirong opened 4 years ago
10
Added ReadEndMatchState to avoid flanking reads that don't have repet…

#85 nmmsv closed 4 years ago
0
Merging current state of develop into master

#84 nmmsv closed 4 years ago
0
Fixing bugs in local realignment when flanking region matches the repeat

#83 gymreklab closed 4 years ago
2
adding sample info to output read info

#82 gymreklab closed 4 years ago
0
Key Error from REF and ALT fields when running DumpSTR on GangSTR vcf file

#81 BonnieCSE opened 4 years ago
5
Fix log message in install-gangstr.sh

#80 Oodnadatta closed 4 years ago
1
Verify checksums for files downloaded over ftp or http

#79 Oodnadatta opened 4 years ago
1
STR info example

#78 Phillip-a-richmond closed 4 years ago
1
WARNING: Region exceeds maximum total processed reads per sample.

#77 shenweima closed 4 years ago
1