|
nf-core/ampliseq
3.0.0
|
16s 18s amplicon-sequencing edna
+12
|
Amplicon sequencing analysis workflow using DADA2 and QIIME2
|
|
nf-core/bactmap
1.0.0
|
bacteria bacterial bacterial-genome-analysis genomics
+3
|
A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences
|
|
nf-core/circdna
1.1.0
|
ampliconarchitect ampliconsuite circle-seq circular
+5
|
Pipeline for the identification of extrachromosomal circular DNA (ecDNA) from Circle-seq, WGS, and ATAC-seq data that were generated from cancer and other eukaryotic cells.
|
|
nf-core/circrna
0.0.0-23fdf1d
|
circrna circrna-pipeline circrna-prediction circular-rna
+5
|
circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data
|
|
nf-core/createtaxdb
3.1.0
|
database database-builder metagenomic-profiling metagenomics
+2
|
Parallelised and automated construction of metagenomic classifier databases of different tools
|
|
nf-core/deepmodeloptim
0.0.0-9925283
|
artificial-intelligence dataprocessing deeplearning genomics
+3
|
Stochastic Testing and Input Manipulation for Unbiased Learning Systems
|
|
nf-core/detaxizer
1.3.0
|
de-identification decontamination edna fastq
+10
|
A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Removal is optional.
|
|
nf-core/eager
2.5.3
|
adna ancient-dna-analysis ancientdna genome
+3
|
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
|
|
nf-core/exoseq
0.0.0-600fad3
|
exome exome-sequencing genomics variant-calling
|
Please consider using/contributing to https://github.com/nf-core/sarek
|
|
nf-core/funcscan
4.0.0
|
amp amr antibiotic-resistance antimicrobial-peptides
+11
|
(Meta-)genome screening for functional and natural product gene sequences
|
|
nf-core/genomeqc
1.0.1
|
genome-assembly-evaluation genomics phylogenetic-trees quality-control
|
Compare the quality of multiple genomes, along with their annotations.
|
|
nf-core/hgtseq
1.1.0
|
bwa-mem bwa-mem2 fastqc genomics-visualization
+9
|
A pipeline to investigate horizontal gene transfer from NGS data
|
|
nf-core/mag
5.5.0
|
annotation assembly binning long-read-sequencing
+4
|
Assembly and binning of metagenomes
|
|
nf-core/metatdenovo
2.0.0
|
eukaryotes metagenomics metatranscriptomics prokaryotes
+1
|
Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.
|
|
nf-core/methylseq
4.2.0
|
bisulfite-sequencing dna-methylation em-seq epigenome
+6
|
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastair
|
|
nf-core/neutronstar
1.0.0
|
10x-genomics 10xgenomics denovo-assembly genome-assembly
+2
|
De novo assembly pipeline for 10X linked-reads using Supernova
|
|
nf-core/pairgenomealign
3.0.4
|
comparative-genomics dot-plot genomics last
+3
|
Pairwise genome comparison pipeline using the LAST software to align a list of query genomes to a target genome, and plot the results
|
|
nf-core/phaseimpute
1.1.0
|
genomics genotype imputation low-pass-sequencing
+1
|
A bioinformatics pipeline to phase and impute genetic data
|
|
nf-core/plasmodiumdrugres
0.0.0-a333327
|
drug-resistance frequency-estimation genomics haplotypes
+6
|
Pipeline for analyzing drug resistance markers from Plasmodium microhaplotype data. Translates variants into amino acid changes at drug resistance loci and estimates allele frequencies and prevalences at both single-locus and multi-locus levels. Microhaplotype data can be supplied in the form of an allele table or a PMO file.
|
|
nf-core/proteinfamilies
2.6.0
|
metagenomics protein-families
|
Generation and updating of protein families
|