Description
Issue
Tool
Status
Notes
nf-core module exists?
#587
CoverM
In progress (#997 )
Contig and bin coverage
Yes: coverm/contig, coverm/genome
#822
hostile
In progress (#857 )
Alternative host read removal tool
Yes: hostile/clean, hostile/fetch
#413
dRep
Open
Bin dereplication
Yes: drep/compare, drep/dereplicate
#1023
myloasm
Open
Long-read metagenome assembler
Yes: myloasm
#624
pyrodigal
Open
Alternative to Prodigal
Yes: pyrodigal
#714
binette
Open
Alternative bin refinement tool
No
#1024
skDER / CiDDER
Open
Bin dereplication
No
#1033
fastplong
Open
Long read QC
Yes: fastplong
#346
Bakta
Open
Alternative to Prokka
Yes: bakta/bakta, bakta/baktadbdownload
#980
DeepMAsED
In progress (#1051 )
Contig QC / misassembly estimation tool
Yes
#796
fairy
Open
Fast co-coverage estimation
Yes: fairy/sketch, fairy/coverage
#722
Taxometer
Open
Taxonomic classification for contigs
No
#650
CarpeDeam
Open
Ancient-DNA-aware assembler
No
#609
Sourmash
Open
Genome taxonomic classification
Yes: sourmash/compare, sourmash/gather, sourmash/index, sourmash/sketch, sourmash/taxannotate
#580
StrainXpress
Open
Strain-aware assembler
No
#1040
Polypolish
Open
Short-read polishing of nanopore assemblies
Yes: polypolish/polish
Reactions are currently unavailable
You can’t perform that action at this time.
coverm/contig,coverm/genomehostile/clean,hostile/fetchdrep/compare,drep/dereplicatemyloasmpyrodigalfastplongbakta/bakta,bakta/baktadbdownloadfairy/sketch,fairy/coveragesourmash/compare,sourmash/gather,sourmash/index,sourmash/sketch,sourmash/taxannotatepolypolish/polish