Issues
- 6
0 reference calls error
#101 opened by Jucarvag - 25
results.cov.bed.gz last line
#84 opened by gevro - 38
Possible bug in filtering of indels
#96 opened by gevro - 2
sort order required for SNP and NOISE masks?
#98 opened by gevro - 1
gnomad filtering of indels
#97 opened by gevro - 1
Confirming meaning of 'total' in mut_burden.tsv
#95 opened by gevro - 1
- 1
Question about mutation results
#91 opened by shanyfr - 3
var -n parameter
#90 opened by gevro - 20
QC for indels
#80 opened by gevro - 0
- 7
Bug in 'post' step for indels
#86 opened by gevro - 4
Minimum base quality
#88 opened by gevro - 2
runNanoSeq.py var and post by NanoSeq 3.5.4 fails for some of samples that NanoSeq 3.5.1 run successfully.
#85 opened by monagai - 1
'Truncated dsa output file' error
#87 opened by gevro - 1
quay.io docker
#83 opened by gevro - 2
Recommended -c setting
#81 opened by gevro - 2
- 1
- 1
Source of human genome trinucleotide frequencies
#78 opened by gevro - 2
--mc option for runNanoSeq.py indel
#73 opened by monagai - 3
- 6
Install scripts/dockerfile need to install specific versions of dependencies (R is explicitly causing trouble)
#67 opened by blex-max - 9
Calculation of frequency for mismatches.subst_asym
#36 opened by gevro - 5
mouse genome masks
#57 opened by gevro - 1
- 7
not all reads have the RB tags
#56 opened by Ding-hang - 11
very low duplicate rate
#37 opened by LisaHagenau - 5
- 1
Recommendation for mouse restriction enzyme
#55 opened by gevro - 4
- 7
- 7
Nextflow vs documentation differences
#50 opened by gevro - 2
- 1
Version compatibility
#49 opened by gevro - 1
Discordant results between hs37d5 and hg38
#48 opened by gevro - 7
Genomic masks for hg38
#45 opened by gevro - 2
DSC_estimated_error_rates
#47 opened by gevro - 7
Advice for beginner trying to run this
#46 opened by bradclass - 6
extract_tags.py error
#41 opened by MariaZhi - 3
part Error
#43 opened by MariaZhi - 1
Nextflow error
#42 opened by MariaZhi - 9
Calculating post-filtering (final) efficiency
#38 opened by gevro - 5
bamaddreadbundles fails
#35 opened by mgp2022 - 2
Mutation count per cell
#34 opened by gevro - 4
Output files question
#33 opened by gevro - 1
Question about conf interval calculation
#32 opened by gevro - 2
Within-plate cross-contamination
#31 opened by gevro - 2
CRAM files
#30 opened by gevro - 1