Comments (2)
Tools that support FASTA input
- MALT - T
- Kraken2 - T
- MetaPhlAn3 -T
- Centrifiuge - T
from taxprofiler.
@sofstam when checking this, I just noticed that the centrifuge module doesn't include the -f
flag anywhere.
I'm very sorry for missing that in the PR review 🤦♀
Could you maybe update the module?
from taxprofiler.
Related Issues (20)
- https://github.com/nf-core/taxprofiler/pull/318
- Enhance Profiler ganon by adding combineProfilesWithDatabase
- Profiling: consider cross-database merge for KMCP
- KMCP profile mode forced for all databases
- Add Eukdetect
- Add small files to tower.yml
- Simplify test profiles in CI test HOT 1
- Update KrakenUniq to 1.0.4 due to bug causing misreading if input files
- Update to nf-core tempate 2.10
- Add support for sequencing coverage esimates with nonpareil HOT 4
- process `MEGAN_RMA2INFO` JavaFX detected no fonts error HOT 1
- Taxpasta parameters produce an error exit status of 2 which asks for a taxonomy even though kraken2 and centrifuge have worked. HOT 1
- Taxpasta parameters produce an error exit status of 2 which asks for a taxonomy even though kraken2 and centrifuge have worked. HOT 1
- process `VISUALIZATION_KRONA` mis-combined channel by wrong index HOT 3
- `KRONA_KTIMPORTTEXT` input file name collision if same 'db_name' is assigned to kraken2 and bracken HOT 5
- MetaPhlAn4 full index provide duplicated 'NCBI_tax_id' to taxpasta as input HOT 1
- Allow hibf in ganon? HOT 8
- General version update of all tools
- megan version 6.21.7 throw `java.lang.NullPointerException` error HOT 5
- Allow multiple bracken profiles with different `-l` levels from the same kraken2 report HOT 1
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from taxprofiler.