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MTBseq_source
MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.
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is it possible to change the location of /tmp directory?
#101
ReemaSingh
opened
1 month ago
2
same mutation multiple times
#100
pratibha-kadam
opened
1 month ago
1
Merger of dev_CU and true codon branches
#99
ibarilar
closed
3 months ago
0
chore: testing
#98
Mor-Rubinsteinn
closed
2 months ago
0
How to update to the newest WHO mutation catalogue?
#97
amolares
opened
6 months ago
2
TBbwa.pm have an issue from Bioconda??
#96
foamy1881
closed
1 month ago
2
Results TBgroups
#95
acebollada80
closed
4 months ago
2
Annotation format and column meaning
#94
SchwarzMarek
closed
1 month ago
1
Problem in the detection of amikacin resistances
#93
amolares
closed
1 month ago
1
draft genome as reference
#92
moks-micro
closed
1 month ago
1
gatk.bam error 256
#91
peflanag
closed
7 months ago
12
Bam issue 256
#90
peflanag
closed
1 year ago
2
installing v1.1.0
#89
peflanag
closed
1 year ago
4
Option doesn't work --snp_vars
#88
ntmscope
closed
1 year ago
3
memory error
#87
danaauganova
closed
1 year ago
2
No data in the column of ResistanceSNP, PhyloSNP, and InterestingRegion of variants called list.
#86
ryobon-dev
closed
7 months ago
1
fix the highlight for the wget command
#85
abhi18av
closed
1 year ago
0
MTBseq Update?
#84
peflanag
closed
1 month ago
8
TBjoin filename outputs adds number at end
#83
KatG3
closed
1 year ago
1
Bam issue
#82
peflanag
closed
1 year ago
1
Pause and continue
#81
jloubser
closed
1 year ago
1
conda installation version
#80
alantsangmb
closed
1 year ago
1
gatk does not recognize '--analysis_type'
#79
Mor-Rubinsteinn
closed
1 year ago
1
Error failed 256 in .bamlog
#78
RichardUABC
closed
1 year ago
1
log4j issue with gatk3.8 and picard2.18
#77
alexadn
closed
1 year ago
4
TBlist and TBvariants
#76
RichardUABC
closed
2 years ago
0
Can I add additional SNP bar coding for phylogenetic classification ?
#75
ryobon-dev
closed
1 year ago
5
gatk3 issue
#74
JFsanchezherrero
closed
2 years ago
2
Matrix file created by TBgroup
#73
ryobon-dev
closed
2 years ago
7
File for the repetitive regions of the exchanged reference genome for TBamend
#72
ryobon-dev
closed
2 years ago
4
How can I get a strain specific SNP from TBamed file ?
#71
ryobon-dev
closed
2 years ago
3
Amend
#70
aspitaleri
opened
3 years ago
1
no files generated inside statistics, amend, classification, joint folders
#69
geethanjali97
closed
3 years ago
0
gatk.bamlog failed:256 when tested my own reference fasta
#68
ryobon-dev
closed
3 years ago
4
High confidence mutation
#67
GuilhemRoyer
closed
2 years ago
1
Wrong option name --minphred in MANUAL.md
#66
msmdev
closed
3 years ago
1
Candida parapsilosis analysis
#65
peflanag
closed
3 years ago
2
position_tables with slurm
#64
aspitaleri
closed
3 years ago
3
samples.txt file
#63
sajidjan80
closed
3 years ago
1
remove snp for phylogenesis
#62
aspitaleri
closed
3 years ago
5
A fatal error has been detected by the Java Runtime Environment:
#61
ryobon-dev
closed
3 years ago
2
Amend multifasta with reference?
#60
Viloleal
closed
3 years ago
2
MTBseq considers R1 and R2 as two different isolates rather than considering it as double reads of a single isolates.what shall i do?any help?
#59
AmanuelZewdu
closed
3 years ago
2
Updates for the resistance mutations database
#58
Mor-Rubinsteinn
closed
3 years ago
2
Variant Calling with M bovis
#57
peflanag
closed
3 years ago
2
Annotation File - Other organisms
#56
peflanag
closed
3 years ago
3
MTBseq unable to detect the Bam output, even though it's present in the file system
#55
abhi18av
closed
3 years ago
2
docs: tweak the doc for a straightforward usage section
#54
abhi18av
closed
3 years ago
1
No Joint Variant File To Amend
#53
peflanag
closed
3 years ago
10
Gatk High Quality Score
#52
peflanag
closed
3 years ago
7
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