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nf-core
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smrnaseq
A small-RNA sequencing analysis pipeline
https://nf-co.re/smrnaseq
MIT License
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125
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Add nf-core `bowtie2 build` to smrnaseq
#434
atrigila
closed
2 months ago
0
Add nf-core `bowtie1 build` to smrnaseq
#433
atrigila
closed
2 months ago
0
Upgrade multiqc and update modules
#432
atrigila
closed
2 months ago
1
Create nf-core `mirdeep` module
#431
atrigila
closed
1 month ago
0
Emit a warning upon supply of PE data
#430
atrigila
closed
2 months ago
1
allow to save intermediates
#429
atrigila
closed
2 months ago
1
Upgrade Modules - and include Umicollapse into MQC report
#428
apeltzer
closed
2 months ago
2
Add nf-core `pigz uncompress`
#427
atrigila
closed
2 months ago
1
Add nf-core `mirtop`
#426
atrigila
closed
2 months ago
1
Bump-minimum-nxf-version
#425
apeltzer
closed
2 months ago
1
Raise minimum NXF version
#424
apeltzer
closed
2 months ago
0
Pipeline should warn / crash for users with warning upon supply of PE data
#423
apeltzer
closed
2 months ago
0
Replace custom code with nf-core/modules/pigz/uncompress
#422
apeltzer
closed
2 months ago
1
Error in 'NFCORE_SMRNASEQ:MIRTRACE' for paired data
#421
ranxm2
closed
2 months ago
9
Add `config` mode to nf-core `mirtrace/qc`
#420
atrigila
closed
2 months ago
2
mirTrace produces an error in test nextflex
#419
atrigila
closed
2 months ago
2
Add nf-core `seqcluster` module
#418
atrigila
closed
2 months ago
2
Add nf-core `mirtop` module to smrnaseq
#417
atrigila
closed
2 months ago
1
Add nf-core `seqcluster` to smrnaseq
#416
atrigila
closed
2 months ago
1
The pipeline doesn't finish but is marked as completed
#415
karlaarz
closed
1 month ago
13
Possible bug in logic code related to mature, hairpin and species setup
#414
lpantano
closed
1 month ago
4
Create nf-core `seqcluster` module
#413
atrigila
closed
2 months ago
0
Updating nextflex branch
#412
nschcolnicov
closed
2 months ago
1
Migrate local `mirTrace` to nf-core
#411
atrigila
closed
2 months ago
3
Add nf-core `mirTrace` module to smrnaseq
#410
atrigila
closed
2 months ago
0
genome-wide smrna detection and quantification
#409
lpantano
opened
2 months ago
2
Trim3p nextflex
#408
lpantano
closed
2 months ago
0
Fix Nextflex 4nt 3p trimming
#407
lpantano
closed
2 months ago
3
Improve the contaminant filter
#406
apeltzer
closed
1 month ago
2
Fix Umicollapse PE wrong method set
#405
apeltzer
closed
2 months ago
1
Umicollapse algo wrong set
#404
apeltzer
closed
2 months ago
0
Create nf-core `mirtop` module
#403
atrigila
closed
2 months ago
0
Create nf-core `mirTrace` module
#402
atrigila
closed
2 months ago
0
Create nf-core `mirTrace` module
#401
atrigila
closed
2 months ago
1
Addressing TODOs in pipeline, general cleanup of variables
#400
nschcolnicov
closed
1 month ago
2
Generate test profile for mirdeep subworkflow
#399
nschcolnicov
closed
1 month ago
0
Updated channels
#398
nschcolnicov
closed
2 months ago
2
Replace local `blat` for nf-core `blat` in contaminant filter subworkflow
#397
atrigila
closed
2 months ago
4
Added sharding
#396
nschcolnicov
closed
2 months ago
1
Migrate local `BLAT` to nf-core modules
#395
atrigila
closed
2 months ago
0
Update test files
#394
nschcolnicov
closed
2 months ago
1
Assess which files should be published
#393
nschcolnicov
closed
2 months ago
4
Assess converting local modules to nf-core
#392
nschcolnicov
closed
2 months ago
1
Change `.bai` index for `.csi` index in `samtools_index`
#391
atrigila
closed
2 months ago
4
Pipeline not using channels for all inputs
#390
nschcolnicov
closed
2 months ago
1
Make nf-tests go faster
#389
nschcolnicov
closed
2 months ago
5
Updating workflow files to work with Igenome
#388
nschcolnicov
closed
2 months ago
3
Add nf-test for local module `blat_mirna`
#387
atrigila
closed
2 months ago
2
Trim3p nextflex
#386
lpantano
closed
2 months ago
22
Params not being read from igenomes
#385
nschcolnicov
closed
2 months ago
0
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