nf-core oncoanalyser issues

nf-core / oncoanalyser

A comprehensive cancer DNA/RNA analysis and reporting pipeline

https://nf-co.re/oncoanalyser

MIT License

50 stars 8 forks source link

issues

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Add option for Sambamba tmp directory

#112 adbeggs opened 4 days ago
0
Fix paths to panel resources in panel_data.config

#111 bounlu closed 1 week ago
4
Added amber module test

#110 rhassaine opened 2 weeks ago
2
Using oncoanalyser for whole exome sequencing data

#109 anshupas opened 3 weeks ago
2
Reapply 5.34 resource tweaks

#108 mvanniekerkHartwig closed 3 weeks ago
0
Resource requirement tweaks

#107 mvanniekerkHartwig opened 1 month ago
4
Too low resource requirements and too high heap memory causes processes to go OOM

#106 mvanniekerkHartwig opened 1 month ago
0
Fix "Markdups process marks aligner output as markdups output incorrectly"

#105 mvanniekerkHartwig closed 4 weeks ago
2
Markdups process marks aligner output as markdups output incorrectly

#104 mvanniekerkHartwig closed 4 weeks ago
6
Important! Template update for nf-core/tools v3.0.2

#103 nf-core-bot closed 4 weeks ago
1
Important! Template update for nf-core/tools v3.0.1

#102 nf-core-bot closed 1 month ago
1
Important! Template update for nf-core/tools v3.0.0

#101 nf-core-bot closed 1 month ago
1
`Rscript` error when running `PURPLE`

#100 bounlu closed 1 month ago
3
`markdups` fails with `Range [0, -1) out of bounds` error

#99 bounlu closed 2 months ago
5
Fixed typos

#98 bounlu closed 2 months ago
1
Fixed typos

#97 bounlu closed 2 months ago
2
Add type to ref_data_hla_slice_bed entry in the nextflow_schema.json

#96 scoughlan2 closed 2 months ago
2
Post-release bump

#95 scwatts closed 2 months ago
3
Correct nextflow schema entry for ref_data_hla_slice_bed

#94 scoughlan2 closed 2 months ago
3
Missing type string in one part of nextflow_schema.json

#93 scoughlan2 closed 2 months ago
0
Compatibility of IonTorrent BAM Files for HRD Analysis with nf-core/oncoanalyser

#92 Sadiki-Noureddine closed 2 months ago
1
Improve input validation for FASTQ

#91 scwatts opened 3 months ago
0
Update CHANGELOG.md

#90 scwatts closed 3 months ago
1
invalid file type: 'fastq'

#89 jkneppers closed 3 months ago
1
Fix software version reporting

#88 scwatts closed 3 months ago
1
Update PAVE somatic command

#87 scwatts closed 3 months ago
1
Add missing conda directive to MarkDups process

#86 scwatts closed 3 months ago
1
Release 1.0.0

#85 scwatts closed 3 months ago
1
Add documentation describing workflow design choices

#84 scwatts opened 3 months ago
0
Implement basic sequence and alignment QC reporting

#83 scwatts opened 3 months ago
0
Determine whether certain Groovy syntax should be removed

#82 scwatts opened 3 months ago
0
Reintroduce MultiQC for workflow and analysis summary

#81 scwatts opened 3 months ago
0
Add reference data to iGenomes

#80 scwatts opened 3 months ago
0
Determine future feasibility of switch to nf-core bump-version

#79 scwatts opened 3 months ago
0
Fix panel parameter validation during pre-flight check

#78 scwatts closed 3 months ago
1
Setting targeted mode without a panel gives an error message containing null

#77 SPPearce closed 3 months ago
1
Allow RNA BAM from samplesheet as LILAC input

#76 scwatts closed 3 months ago
1
Move fastp arguments to modules.config

#75 SPPearce opened 3 months ago
2
Eliminate bottlenecking of markdups

#74 SPPearce closed 2 months ago
3
UMI support in WGTS mode

#73 SPPearce opened 3 months ago
1
Apply the seventh set of reviewer recommendations

#72 scwatts closed 3 months ago
5
Shrink reference data to support execution on GHA runners

#71 FriederikeHanssen opened 3 months ago
1
Apply the sixth set of reviewer recommendations

#70 scwatts closed 4 months ago
1
Update documentation in usage.md

#69 scwatts closed 4 months ago
1
Apply the fifth set of reviewer recommendations

#68 scwatts closed 4 months ago
1
Apply the fourth set of reviewer recommendations

#67 scwatts closed 4 months ago
1
Add support for custom targeted panel

#66 bounlu closed 2 months ago
4
`samplesheet` format is not recognised

#65 bounlu closed 3 months ago
8
Apply the third set of reviewer recommendations

#64 scwatts closed 4 months ago
1
Gene fusion detection

#63 bounlu closed 4 months ago
3