|
nf-core/antismash/antismashdownloaddatabases
|
secondary metabolites
BGC
biosynthetic gene cluster
genome mining
NRPS
RiPP
antibiotics
prokaryotes
bacteria
eukaryotes
fungi
antismash
database
|
antiSMASH allows the rapid genome-wide identification, annotation and analysis of secondary metabolite biosynthesis gene clusters. This module downloads the antiSMASH databases for conda and docker/singularity runs.
|
|
nf-core/antismash/antismashlitedownloaddatabases
|
secondary metabolites
BGC
biosynthetic gene cluster
genome mining
NRPS
RiPP
antibiotics
prokaryotes
bacteria
eukaryotes
fungi
antismash
database
|
antiSMASH allows the rapid genome-wide identification, annotation and analysis of secondary metabolite biosynthesis gene clusters. This module downloads the antiSMASH databases for conda and docker/singularity runs.
|
|
nf-core/bakta/baktadbdownload
|
bakta
annotation
fasta
bacteria
database
download
|
Downloads BAKTA database from Zenodo
|
|
nf-core/blast/blastdbcmd
|
fasta
blast
database
retrieval
identifier
|
Retrieve entries from a BLAST database
|
|
nf-core/blast/makeblastdb
|
fasta
blast
database
|
Builds a BLAST database
|
|
nf-core/blast/updateblastdb
|
fasta
blast
download
database
|
Downloads a BLAST database from NCBI
|
|
nf-core/bracken/build
|
kraken2
bracken
database
build
|
Extends a Kraken2 database to be compatible with Bracken
|
|
nf-core/catpack/download
|
taxonomic classification
classification
database
download
|
Downloads the required files for either Nr or GTDB for building into a CAT database
|
|
nf-core/catpack/prepare
|
catpack
cat
prepare
database
profiling
build
|
Creates a CAT_pack database based on input FASTAs
|
|
nf-core/centrifuge/build
|
database
metagenomics
build
db
fasta
|
Build centrifuge database for taxonomic profiling
|
|
nf-core/checkv/downloaddatabase
|
checkv
checkm
mag
metagenome
quality
isolates
virus
completeness
contamination
download
database
|
Construct the database necessary for checkv's quality assessment
|
|
nf-core/deeparg/downloaddata
|
download
database
deeparg
antimicrobial resistance genes
deep learning
prediction
|
A deep learning based approach to predict Antibiotic Resistance Genes (ARGs) from metagenomes
|
|
nf-core/deepbgc/download
|
database
download
BGC
biosynthetic gene cluster
deep learning
neural network
random forest
genomes
bacteria
fungi
|
Database download module for DeepBGC which detects BGCs in bacterial and fungal genomes using deep learning.
|
|
nf-core/diamond/makedb
|
fasta
diamond
index
database
|
Builds a DIAMOND database
|
|
nf-core/entrezdirect/esearch
|
public datasets
entrez
search
ncbi
|