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36 Open 129 Closed
36 Open 129 Closed
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Issues list

[E::bwa_idx_load_from_disk] fail to locate the index files
#228 opened Sep 11, 2024 by ATCG-ATCG
Bamsurgeon addsnv.py takes 4 hours to add one SNP to a bam file of size 3.1MB ?
#225 opened May 14, 2024 by TrangNg-Th
"best contig too short to make mutation" / "No good alignment between mutated contig and original, aborting mutation!" Errors
#223 opened Aug 7, 2023 by FelipeAze
Bamsurgeon goes silent (does not finish) on high coverage small panel bam file
#217 opened Jan 10, 2023 by ranjit58
8
Samtools view issue
#214 opened Aug 25, 2022 by lukatop
Add SV for Single end ONT reads
#210 opened Aug 8, 2022 by saranya-work
3
Publish docker image on Github Container Registry
#209 opened Jul 6, 2022 by holtgrewe
2
outbam
#208 opened Jul 1, 2022 by pengsl-lab
7
AttributeError: 'array.array' object has no attribute 'tostring'
#207 opened Jun 20, 2022 by oliverartz
5
ValueError: quality and sequence mismatch: 98 != 97
#204 opened May 20, 2022 by mkankain-hruh
5
Losing Haplotype information bug
#195 opened Mar 21, 2022 by FranziskaSundermann
2
no succesful mutations with addsv.py bug
#191 opened Dec 21, 2021 by Ashesltz
All avgoutcoverage = 0 bug
#190 opened Dec 10, 2021 by mrmilhaven
4
addindel.py error: Could not pile up over region - no successful mutations
#186 opened Sep 1, 2021 by gtollefson
3
Expansion repeats question
#185 opened Jul 17, 2021 by hadasApplied
Less variant reads than expected with specified VAF
#184 opened Jul 13, 2021 by aldosr
14
DEL not considering VAF Input
#183 opened Jul 8, 2021 by jelisavetailic
5
Samtools error:[E::bam_hdr_write] Header too long for BAM format
#181 opened Jun 2, 2021 by linkmonica
2
addsv Error missing bwatmp file
#175 opened Feb 9, 2021 by fre335
2
Unsuccesful replacement of all reads
#174 opened Feb 8, 2021 by LauraVP1994
7
ValueError: invalid coordinates: start > stop
#173 opened Feb 4, 2021 by pauline-ng
1
WARNING 2020-10-20 17:26:48,369 haplo_1_1167112_1167113 could not pileup for region: 1:1167103 WARNING 2020-10-20 17:27:46,108 1_1167103_1167198_None_None warning: no mate for hsa-mir-200b_MI0000342-s11000 bug
#169 opened Oct 20, 2020 by andreiaamaral
sizes of successful CNVs - smaller than expected
#166 opened Sep 1, 2020 by RichardCorbett
5
Issues about the latest Dockerfile
#165 opened Jul 16, 2020 by nikleotide
picard tools' FixMates returns error after spike-in and post-processing
#162 opened Jun 22, 2020 by jmal0403
2
ProTip! Exclude everything labeled bug with -label:bug.