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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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Actually pass params to CI tests
#978
jfy133
closed
1 year ago
1
bwa time issue / threads
#977
Angelika-2Z-Borowiecka
closed
1 year ago
1
DSL2: Adding angsd contamination estimation
#976
scarlhoff
closed
1 year ago
1
Add ANGSD contamination estimation
#975
scarlhoff
closed
1 year ago
0
DSL2: Provide correct data for upload to sequencing archives (e.g. ENA)
#974
TCLamnidis
opened
1 year ago
0
Important! Template update for nf-core/tools v2.8
#973
nf-core-bot
closed
1 year ago
2
DSL2: Damageprofile
#972
jbv2
closed
1 year ago
2
Unify metagenomic implemenations into development dsl2-metagenomics branch
#971
ilight1542
closed
1 year ago
0
DSL2L: Add support for specifying platform in input TSV
#970
jfy133
opened
1 year ago
0
[DO NOT MERGE] 'Open' branch Dsl2 metagenomics
#969
jfy133
closed
1 year ago
0
DSL2: Make publication of large intermediate files opt-in
#968
scarlhoff
opened
1 year ago
0
DSL2: subworkflow metagenomics profiling
#967
ilight1542
closed
1 year ago
5
Add damage profile
#966
jbv2
closed
1 year ago
0
DSL2: Dev hostremoval
#965
aidaanva
closed
1 year ago
2
DSL2: Adding Bowtie2
#964
scarlhoff
closed
1 year ago
1
DSL2: Add damage manipulation
#963
TCLamnidis
closed
1 year ago
3
update reference of test_humanbam
#962
TCLamnidis
closed
1 year ago
1
DSL2: Adding endorspy
#961
aidaanva
closed
1 year ago
3
DSL2: Dsl2-complexity filtering pre-metagenomics screening
#960
ilight1542
closed
1 year ago
6
Add Bowtie 2
#959
scarlhoff
closed
1 year ago
0
DSL2: Add Mtnucratio
#958
jbv2
closed
1 year ago
5
DSL2: aDNA Damage Manipulation
#957
TCLamnidis
closed
5 months ago
1
Mt nuc ratio
#956
jbv2
closed
1 year ago
1
DSL2: Add mtnuclear ratio
#955
jbv2
closed
1 year ago
0
DSL2: Adding BWA-MEM
#954
scarlhoff
closed
1 year ago
1
Add BWA-MEM
#953
scarlhoff
closed
1 year ago
1
DSL2: Add multi-reference mapping support
#952
jfy133
closed
1 year ago
12
Regarding groovyx.gpar error:
#951
BADMANSachin
closed
1 year ago
6
Incorrect software version for GATK Unified Genotyper
#950
meganemichel
closed
1 year ago
3
DSL2: Add Falco as an alternative to FastQC
#949
scarlhoff
closed
1 year ago
3
DSL2: Add Preseq
#948
jbv2
closed
1 year ago
2
Add FALCO as alternative to FASTQC
#947
jfy133
closed
1 year ago
0
Dsl2 Preseq
#946
jbv2
closed
1 year ago
2
Possiblity to extract non-host paired-end reads in separate FastQ files
#945
alexhbnr
opened
1 year ago
0
Dsl2 deduplication
#944
TCLamnidis
closed
1 year ago
3
DSL2: Document loudly that -params-files should replace custom.config for parameters
#943
jfy133
opened
1 year ago
0
subset large datasets for dataset-wide statistics
#942
ChristopherBarrington
opened
1 year ago
0
Add DSL2 samtools filter
#941
jfy133
closed
1 year ago
5
Important! Template update for nf-core/tools v2.7.2
#940
nf-core-bot
closed
1 year ago
1
Important! Template update for nf-core/tools v2.7.1
#939
nf-core-bot
closed
1 year ago
1
Found unexpected parameters --qualitybase: 64
#938
KeLi1018
closed
1 year ago
1
DSL2: Add mapping with bwaaln
#937
jfy133
closed
1 year ago
1
Patch 2.4.6
#936
TCLamnidis
closed
1 year ago
1
Fix mapdamage and add parameter
#935
jfy133
closed
1 year ago
3
Missing "=" in mapdamage rescale command
#934
ashildv
closed
1 year ago
1
mapdamage2 --seq-length parameter
#933
ashildv
closed
1 year ago
1
Patch: increase mean/median X coverage significance values
#932
jfy133
closed
1 year ago
3
Patch release dependency updates
#931
jfy133
closed
1 year ago
1
Re-add picard createorreplacereadgroups for MultiVCFanalyzer
#930
jfy133
closed
1 year ago
5
Try fix for damageprofiler sometimes needing a fai file
#929
jfy133
closed
1 year ago
2
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