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nf-core
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differentialabundance
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
https://nf-co.re/differentialabundance
MIT License
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add module GSEA
#311
suzannejin
opened
1 month ago
1
add module LIMMA
#310
suzannejin
closed
3 weeks ago
0
Restructure the way how the 'experimental' branch is called by main
#309
suzannejin
opened
1 month ago
0
Split ch_tools into subworkflow relevant subchannels
#308
bjlang
closed
1 month ago
3
update documentation
#307
suzannejin
opened
1 month ago
0
[dev-ratio] add deseq2 and gprofiler2 into the experimental branch
#306
suzannejin
closed
3 weeks ago
1
https://nf-co.re/differentialabundance/1.5.0/docs/usage/#g should be the full name:gprofiler2, not just g
#305
vmkalbskopf
closed
8 hours ago
1
Disallow TXT files
#304
WackerO
closed
4 weeks ago
3
Merging template updates
#303
pinin4fjords
closed
1 month ago
2
[dev-ratio] add default parameters for propd/propr/grea
#302
suzannejin
closed
1 month ago
1
Important! Template update for nf-core/tools v3.0.2
#301
nf-core-bot
closed
1 month ago
0
Fix-nf-core.yml structure
#300
mashehu
closed
1 month ago
1
Add exclusions for 3.0.1 template update
#299
pinin4fjords
closed
1 month ago
4
Important! Template update for nf-core/tools v3.0.1
#298
nf-core-bot
closed
1 month ago
1
Important! Template update for nf-core/tools v3.0.0
#297
nf-core-bot
closed
1 month ago
1
[dev-ratio] update R template for propr local modules
#296
suzannejin
closed
1 month ago
3
deseq_lfc_threshold parameter is not working as intended.
#295
erdikucuk
opened
1 month ago
0
Gene sets in the shinyngs app
#294
Jeff-hard
opened
1 month ago
0
[dev-ratio] simplified toolsheet structure, and modified the subworkflows accordingly
#293
suzannejin
closed
1 month ago
2
Store output of different pathways in different folders
#292
bjlang
closed
1 month ago
2
Command error: gtf2featureAnnotation.R: command not found ---pipeline test
#291
cloud2266
closed
1 month ago
6
minor code restructuring
#290
bjlang
closed
2 months ago
1
small gprofiler2 bugfix
#289
WackerO
closed
1 month ago
1
Dev ratio
#288
bjlang
opened
2 months ago
3
volcano plot cannot be edited in the report
#287
jml96
closed
1 month ago
3
Add limma for rnaseq
#286
KamilMaliszArdigen
closed
3 weeks ago
15
Dev ratio
#285
bjlang
closed
2 months ago
1
Update dev-ratio with changes from dev branch
#284
bjlang
closed
2 months ago
1
Include CoDa workflow in main workflow
#283
bjlang
closed
2 months ago
1
Dev
#282
bjlang
closed
3 months ago
5
Coda workflow
#281
caraiz2001
closed
4 months ago
1
Bump shinyngs, fix contrasts passed to app creation
#280
pinin4fjords
closed
5 months ago
2
How to use `--transcript_length_matrix` with nf-core/rnaseq `--aligner star_rsem` output?
#279
olgabot
closed
3 months ago
2
Fix gprofiler2 genesets default object
#278
WackerO
closed
5 months ago
1
For spike-in analysis, remove control features from outputs
#277
dshechter
opened
5 months ago
0
Requests: Enhancements to DESeq2 csv outputs and PDF outputs
#276
dshechter
opened
5 months ago
0
Provide a parameter to disable rmarkdown report creation in the differential abundance pipeline
#275
shreya-sharma20
opened
6 months ago
2
Fix pagination on samples table
#274
pinin4fjords
closed
6 months ago
1
Template update for nf-core/tools v2.14.1
#273
WackerO
closed
6 months ago
1
Show >10 contrasts in report
#272
pinin4fjords
closed
6 months ago
2
Normalized/Raw data mishap on the report
#271
rekren
closed
6 months ago
1
Missing colour and hover labels in interactive report volcano plot
#270
ajeffs
opened
6 months ago
6
Important! Template update for nf-core/tools v2.14.1
#269
nf-core-bot
closed
6 months ago
1
Important! Template update for nf-core/tools v2.14.0
#268
nf-core-bot
closed
6 months ago
1
Minor fixes for release 1.5.0, update changelog
#267
WackerO
closed
6 months ago
1
Fix logging by specifying assays to log
#266
pinin4fjords
closed
6 months ago
2
GSEA- pngs and htmls in same place
#265
pinin4fjords
closed
6 months ago
2
Change FILTER_DIFFTABLE to python because AWK does not correctly filter reliably
#264
WackerO
closed
7 months ago
1
PosixFileAttributeView
#263
nick-youngblut
opened
7 months ago
0
Auto-format sample names
#262
nick-youngblut
opened
7 months ago
2
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