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PacificBiosciences
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pb-human-wgs-workflow-snakemake
Workflow for the comprehensive detection and prioritization of variants in human genomes with PacBio HiFi reads
BSD 3-Clause Clear License
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trgt de novo
#172
lauragails
closed
4 months ago
4
TRGT failing
#171
looxon93
closed
1 year ago
2
fix: missing parenthesis
#170
cgjosephlee
closed
1 year ago
0
Error running Glnexus
#169
priyambial123
closed
1 year ago
2
Support multiple basemod tools
#168
williamrowell
closed
1 year ago
0
Issue in running last_align rule
#167
priyambial123
closed
1 year ago
2
Update pb-cpg-tools to v2.1.1
#166
williamrowell
closed
1 year ago
0
Update to pb-CpG-tools v2.1.1
#165
williamrowell
closed
1 year ago
1
Update to pb-CpG-tools v2.1.0
#164
williamrowell
closed
1 year ago
1
Upgrade trgt to v0.4.0
#163
williamrowell
closed
1 year ago
0
Update trgt to v0.4.0
#162
williamrowell
closed
1 year ago
0
Update pbsv to v2.9 for Revio support
#161
williamrowell
closed
1 year ago
0
Update hifiasm
#160
williamrowell
closed
1 year ago
0
update to DeepVariant v1.5.0 and hifiasm 0.18
#159
williamrowell
closed
1 year ago
0
Structural variants benchmark dataset
#158
priyambial123
closed
1 year ago
5
Update to DeepVariant v1.5.0
#157
williamrowell
closed
1 year ago
0
Prepare for Revio
#156
williamrowell
closed
1 year ago
0
fixed regex to match both Revio and Sequel I/II/IIe
#155
williamrowell
closed
1 year ago
1
Revio support
#154
williamrowell
closed
1 year ago
0
Update to support Revio
#153
williamrowell
closed
1 year ago
1
Update with support for Revio
#152
williamrowell
closed
1 year ago
0
process_cohort output
#151
lauragails
closed
1 year ago
1
calculate_phrank
#150
lauragails
closed
1 year ago
3
cohort.yaml question
#149
lauragails
closed
1 year ago
24
**Error in rule bgzip_vcf:**
#148
lauragails
closed
1 year ago
7
Williamrowell/issue146
#147
williamrowell
closed
1 year ago
0
Pin tabulate to fix recent snakemake+conda issues
#146
williamrowell
closed
1 year ago
0
Williamrowell/issue144
#145
williamrowell
closed
1 year ago
0
Update pb-CpG-tools to most recent commit
#144
williamrowell
closed
1 year ago
0
Williamrowell/issue140
#143
williamrowell
closed
4 months ago
0
Specifying directory for singularity downloads
#142
lauragails
closed
1 year ago
24
Singularity version error/check in process_sample.local.sh
#141
ashishjain1988
closed
4 months ago
6
Fix channel priorities in conda environments.
#140
williamrowell
closed
7 months ago
0
Move resource download/generation out of snakemake rules
#139
williamrowell
closed
1 year ago
0
Getting package version error while running the pipeline
#138
ashishjain1988
closed
1 year ago
11
Move resource download/generation out of snakemake rules
#137
williamrowell
closed
1 year ago
0
Updating plof file
#136
lauragails
closed
1 year ago
2
Williamrowell/issue134
#135
williamrowell
closed
1 year ago
0
lockfile: command not found
#134
lauragails
closed
1 year ago
2
Update config.yaml
#133
williamrowell
closed
1 year ago
0
Alignment directory creation issue: Possibly related to needing index files for bams
#132
lauragails
closed
1 year ago
3
Remove slivar filters for sex chromosome variants
#131
williamrowell
closed
4 months ago
1
Update variables.env
#130
williamrowell
closed
1 year ago
1
Add account resource to lsf profile
#129
williamrowell
closed
1 year ago
2
LSF submission: Project name must be specified using bsub -P.
#128
lauragails
closed
1 year ago
10
Missing variants in process_cohort .tsv output (process_cohort)
#127
McClatcheyM
closed
4 months ago
11
snakemake version incompatible with --max-threads=256
#126
lauragails
closed
1 year ago
6
Updated tutorial for trgt
#125
williamrowell
closed
1 year ago
0
update tutorial with trgt documentation
#124
williamrowell
closed
1 year ago
0
Add trgt to process_sample
#123
williamrowell
closed
1 year ago
3
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