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bigbio
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quantms
Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.
https://quantms.org
MIT License
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msgf_plus index database failing when creating big proteogenomics DBs due memory
#421
ypriverol
opened
1 week ago
0
fixed msgfdb index memory bug
#420
daichengxin
closed
1 week ago
3
quantms 0.0.10 -> 0.0.11
#419
ypriverol
closed
2 weeks ago
2
quantms-utils 0.0.10 -> 0.0.11
#418
ypriverol
closed
2 weeks ago
1
image of the quantms workflow still refers to nf-core and version 1.2
#417
ypriverol
opened
2 weeks ago
0
ms2rescore.py arguments list
#416
prvst
closed
2 weeks ago
5
Remove tests that depend on nf-core TOKENS
#414
ypriverol
closed
1 month ago
1
minor updating doc
#413
daichengxin
closed
1 month ago
1
clean and optimization
#412
daichengxin
closed
1 month ago
3
OpenMS and frequently mass shifts in Unimod
#411
ypriverol
opened
1 month ago
12
Benchmarking of the id dda workflow (ms2rescore, percolator, SNR)
#410
ypriverol
opened
1 month ago
12
quantms-utils 0.0.8 -> 0.0.9
#409
ypriverol
closed
1 month ago
1
In the identification workflow we are exporting parquet files with csv extension
#408
ypriverol
closed
1 month ago
0
tdf2mzml in bigbio
#407
ypriverol
closed
1 month ago
1
move tdf2mzml from docker private repo to bigbio quay.io
#406
ypriverol
closed
1 month ago
0
Release of quantms v1.3.0
#405
ypriverol
closed
1 month ago
3
add spectrum2feature
#404
daichengxin
closed
1 month ago
1
Minor changes including docs and nextflow configs
#403
ypriverol
closed
1 month ago
1
Template update for nf-core/tools version 2.14.1
#402
ypriverol
closed
1 month ago
1
Update branch from dev
#401
ypriverol
closed
1 month ago
1
Make files selected with `random_preanalysis` reproducible.
#400
wfondrie
closed
1 month ago
2
Random subset of files selected for DIANN prenalaysis is irreproducible.
#399
wfondrie
closed
1 month ago
0
Migration from python in house scripts to quantms-utils
#398
ypriverol
closed
1 month ago
1
sdrf-pipelines to 0.0.29
#397
ypriverol
closed
1 month ago
1
Add verification for tar unpacking
#396
wfondrie
closed
1 month ago
1
Extracting tar archives of Bruker .d folders sometimes fails silently.
#395
wfondrie
closed
1 month ago
2
Update msstats to the new version.
#394
ypriverol
closed
1 month ago
0
First Tasks for of improvements of OpenMS and quantms
#393
ypriverol
opened
2 months ago
2
Update the pipeline to SDRF validation 0.0.28
#392
ypriverol
closed
1 month ago
0
first commit msstatistics csv -> parquet [DO NOT MERGE]
#391
ypriverol
closed
1 month ago
5
Use compressed parquet files for mzml statistics
#390
jpfeuffer
closed
1 month ago
0
diann 1.8.1 -> 1.9.1dev
#389
daichengxin
closed
2 months ago
7
Update sdrf-pipelines 0.0.26 -> 0.0.27
#388
ypriverol
closed
2 months ago
1
Bug/samplecheck
#387
daichengxin
closed
2 months ago
1
Make validation of ontology terms optional
#386
wfondrie
closed
2 months ago
1
`ms` ontology missing from OLS4 causes `SAMPLESHEET_CHECK` failure
#385
wfondrie
closed
2 months ago
0
diann_convert fails to produce out_msstats when there is no difference in the samples
#384
jpfeuffer
closed
1 month ago
4
Do not upload mzmls on GitHub Actions. Instead upload meaningful intermediate data
#383
jpfeuffer
closed
1 month ago
3
[HOTFIX] pipeline failing without id_only because of missing outputs
#382
jpfeuffer
closed
2 months ago
1
diann 1.8.1 -> 1.9.1dev
#381
ypriverol
closed
2 months ago
3
quantms DIANN 1.9.1dev
#380
ypriverol
closed
2 months ago
8
update readthedoc
#379
daichengxin
closed
3 months ago
0
ms2rescore for quant workflow and fixed some bugs
#378
daichengxin
closed
3 months ago
1
quantms-utils and mokapot error
#377
ypriverol
closed
1 month ago
1
SDRF Parsing Error
#376
jackrogan
closed
1 month ago
1
Moving bin scripts to library helper
#375
ypriverol
closed
2 weeks ago
1
add msgfdb_indexing
#374
daichengxin
closed
4 months ago
2
Add dda id ci and fixed some bugs
#373
daichengxin
closed
4 months ago
1
[BUG] Setting the `diann_speclib` to an empty string breaks the pipeline
#372
jspaezp
closed
4 months ago
3
Comet new version has been released Comet v2024.01.0
#371
ypriverol
opened
4 months ago
2
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