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nf-core
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eager
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
https://nf-co.re/eager
MIT License
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`get_software_versions` failing because of missing version files.
#885
maxibor
closed
2 years ago
2
Operator `into` has been deprecated -- it's not available in DSL2 syntax
#884
hypotheses
closed
2 years ago
2
Fastqc thread fix
#883
jfy133
closed
2 years ago
3
Define DSL1 explicitly, as Nextflow made DSL2 default
#882
Lehmann-Fabian
closed
2 years ago
4
Define DSL1 explicitly, as Nextflow made DSL2 default
#881
Lehmann-Fabian
closed
2 years ago
1
endorspy processes not cached properly on `-resume`
#880
TCLamnidis
closed
2 years ago
2
FASTQC single-end data process doesn't specify number of threads
#879
jfy133
closed
2 years ago
2
Allow pipeline to map to multiple references in one command
#878
roberta-davidson
closed
1 year ago
10
Consider adding mitochondrial contamination estimator
#877
roberta-davidson
closed
2 years ago
1
nextflow.enable.dsl = 1
#876
jfy133
closed
2 years ago
1
2.4.4 patch release
#875
jfy133
closed
2 years ago
3
Bump version for patch
#874
jfy133
closed
2 years ago
1
Fix refactored 2.4.3 auxiliary files to value channels
#873
jfy133
closed
2 years ago
2
Error executing process > 'bwa '
#872
More92
closed
2 years ago
12
Coverage results only computed for one sample when using `--snpcapture_bed` flag
#871
meganemichel
closed
2 years ago
0
Investigate if using `.sort()` can fix some of the suboptimal -resume / caching issues
#870
jfy133
closed
2 years ago
1
Post-release bump
#869
jfy133
closed
2 years ago
1
Important! Template update for nf-core/tools v2.3.2
#868
nf-core-bot
closed
2 years ago
0
Fix bwa mem indexing and re-update MQC SeqTools versions after git me…
#867
jfy133
closed
2 years ago
1
BWA mem fails for paired-end sequencing data that shouldn't be collapsed due to wrong file suffix
#866
alexhbnr
closed
2 years ago
0
Patch Release 2.4.3
#865
jfy133
closed
2 years ago
1
Bump versions for patch release - PR from bump-vers into dev
#864
jfy133
closed
2 years ago
2
2.4.3 Patch Release
#863
jfy133
closed
2 years ago
1
Bump Versions for patch releease
#862
jfy133
closed
2 years ago
2
Patch release
#861
jfy133
closed
2 years ago
1
Important! Template update for nf-core/tools v2.3.1
#860
nf-core-bot
closed
2 years ago
0
Samtools fastq fix
#859
jfy133
closed
2 years ago
1
Corrected the --bamutils_clip flags in tutorials
#858
marcel-keller
closed
2 years ago
2
Samtools BAM 2 Fastq conversion lose read-pair information
#857
jfy133
closed
2 years ago
0
Dsl2
#856
jfy133
closed
2 years ago
1
Dsl2
#855
jfy133
closed
2 years ago
1
Remove expected `.txt` suffix for snp coverage
#854
TCLamnidis
closed
2 years ago
2
Pmdtools reference masking fix , sequencetools update
#853
TCLamnidis
closed
2 years ago
2
Merge clash fix
#852
jfy133
closed
2 years ago
1
Library merge filename collision for a mixture of UDG treatments with several libraries per treatment
#851
alexandregilardet
closed
2 years ago
1
Important! Template update for nf-core/tools v2.3
#850
nf-core-bot
closed
2 years ago
2
Reference masking prior to pmdtools, when requested.
#849
TCLamnidis
closed
2 years ago
2
Update MQC for runtime speed up
#848
jfy133
closed
2 years ago
1
Update MQC Column headers
#847
jfy133
closed
2 years ago
1
A problem with Eager at the DeDup level
#846
More92
closed
2 years ago
1
Re-add piping, and hope ARFP2 doesn't pipe errors into files anymore …
#845
jfy133
closed
2 years ago
2
PMDTools with masked reference is borked
#844
jfy133
closed
2 years ago
1
AdapterRemoval fixprefix hangs with large data
#843
jfy133
closed
2 years ago
0
Improve error message for metagenomic classification incorrect parameters
#842
jfy133
closed
2 years ago
1
Add step size to lc_extrap docs
#841
jfy133
closed
2 years ago
1
Remove deprecated parameters from test profiles
#840
jfy133
closed
2 years ago
1
Fix snpcapture_bed
#839
jfy133
closed
2 years ago
2
BED file for use with --snpcapture_bed not recognized
#838
meganemichel
closed
2 years ago
0
DSL2: Sex determination output sometimes listed on Sample, sometimes on library level
#837
stschiff
opened
2 years ago
1
test_full uses deprecated parameters
#836
jfy133
closed
2 years ago
0
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