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nf-core
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taxprofiler
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
https://nf-co.re/taxprofiler
MIT License
116
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33
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Fix the input of centrifuge_kreport
#369
LilyAnderssonLee
closed
12 months ago
4
Update Taxpasta to v0.6.0
#368
LilyAnderssonLee
closed
12 months ago
1
format citations into APA
#367
LilyAnderssonLee
closed
12 months ago
2
Format citations and correct command template
#366
LilyAnderssonLee
closed
12 months ago
1
Remove kmcp/merge module
#365
LilyAnderssonLee
closed
12 months ago
1
Add apptainer autoMounts
#364
LilyAnderssonLee
closed
12 months ago
1
Bump the release version
#363
LilyAnderssonLee
closed
1 year ago
2
New release 1.1.0
#362
LilyAnderssonLee
closed
11 months ago
3
Add Eukdetect
#361
maxibor
opened
1 year ago
0
Add taxpasta to pipeline versions
#360
sofstam
closed
1 year ago
1
Taxpasta versions
#359
sofstam
closed
1 year ago
2
KMCP profile mode forced for all databases
#358
jfy133
closed
2 months ago
1
Fix KMCP profile being too strict in tests
#357
jfy133
closed
1 year ago
4
Fix missing tag in MQC dynamic methods section and missing KMCP in taxpasta ouput
#356
jfy133
closed
1 year ago
4
Update taxpasta
#355
sofstam
closed
1 year ago
3
Improve tagging for database disambiguation
#354
jfy133
closed
1 year ago
1
Profiling: consider cross-database merge for KMCP
#353
jfy133
opened
1 year ago
0
add combineProfilesWithDatabase to ganon
#352
LilyAnderssonLee
closed
1 year ago
1
Enhance Profiler ganon by adding combineProfilesWithDatabase
#351
LilyAnderssonLee
closed
1 year ago
0
Separate CI tests
#350
LilyAnderssonLee
closed
1 year ago
7
Separate CI tests
#349
LilyAnderssonLee
closed
1 year ago
2
https://github.com/nf-core/taxprofiler/pull/318
#348
LilyAnderssonLee
closed
1 year ago
0
Fix admonition and update changelog
#347
jfy133
closed
1 year ago
3
Decontamination: add hostile for host removal
#346
jfy133
opened
1 year ago
5
Add a tutorials page
#345
jfy133
closed
1 year ago
1
Use quickBAM
#344
sofstam
closed
1 year ago
2
Fix description
#343
jfy133
closed
1 year ago
1
Update usage.md
#342
husensofteng
closed
1 year ago
3
Update usage.md
#341
husensofteng
closed
1 year ago
1
Write a short getting started tutorial
#340
jfy133
closed
1 year ago
2
Function for mapcombinemultimap
#339
jfy133
closed
1 year ago
5
Fix CENTRIFUGE header modification when --out-fmt turned on
#338
jfy133
closed
1 year ago
4
CENTRIFUGE produces a wrong, kraken-like report by mistakenly using the report.txt file
#337
LilyAnderssonLee
closed
1 year ago
0
Replace samplesheet check with nf-validation for both sample and database input sheets
#336
jfy133
closed
6 months ago
1
Ideas: more post-processing functionality
#335
jfy133
opened
1 year ago
2
Change falco process into medium, solve memory issue
#334
LilyAnderssonLee
closed
1 year ago
3
Review of the MetaPhlAn4
#333
LilyAnderssonLee
closed
1 year ago
6
Remove meta clone everywhere for improved resume stability
#332
jfy133
closed
1 year ago
11
Add `--add-rank-lineage` to `taxpasta merge` and `taxpasta standardise`
#331
MajoroMask
closed
1 year ago
1
Improve bracken tagging
#330
jfy133
closed
1 year ago
4
Rename process name of kraken2 that goes to bracken
#329
MajoroMask
closed
1 year ago
2
ERROR: Missing required column header -> sample
#328
kneubehl
closed
1 year ago
3
Taxpasta bump
#327
jfy133
closed
1 year ago
4
Update taxpasta 0.4.1
#326
jfy133
closed
1 year ago
1
Add ability to skip fastq/falco
#325
jfy133
closed
1 year ago
3
Add functionality to turn read QC on/off
#324
vinisalazar
closed
1 year ago
2
Add support for MMSeqs2
#323
jfy133
opened
1 year ago
0
Update taxpasta and add taxpasta support for ganon
#322
jfy133
closed
1 year ago
2
Add support for virus -e expansion in Kaiju
#321
jfy133
closed
1 year ago
1
Enable reporting of individual viral hits by kaiju
#320
dnlrxn
closed
1 year ago
4
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