nf-core / detaxizerLinks
A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Removal is optional.
☆23Updated 2 months ago
Alternatives and similar repositories for detaxizer
Users that are interested in detaxizer are comparing it to the libraries listed below
Sorting:
- Assembly and scaffolding of haploid / unphased genomes from long ONT or PacBio HiFi reads☆31Updated 2 months ago
- Remove human reads from a sequencing run☆47Updated last month
- Toolkit for preparing genomes for submission to NCBI☆29Updated 4 years ago
- Identify long STRs, VNTRs, satellite DNA and other low-complexity regions in a genome☆86Updated 2 weeks ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆55Updated 7 months ago
- Pan-Genomic Matching Statistics☆55Updated last year
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆39Updated 3 years ago
- A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.☆33Updated 8 months ago
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆64Updated 2 weeks ago
- A Nextflow workflow to generate lift over files for any pair of genomes☆69Updated 2 months ago
- More realistic simulator for genomic DNA sequences from Illumina machines that achieves a similar k-mer spectrum as the original☆51Updated 3 years ago
- Surveillance of pathogens using population genomics and sequencing☆54Updated this week
- Gene-flank analysis tool☆37Updated last year
- Remove lambda phage reads from a fastq file☆29Updated 3 years ago
- This repository hosts a large collection of Nextflow snippets☆56Updated last year
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆62Updated 2 months ago
- The buttery eel - a slow5 guppy/dorado basecaller wrapper☆42Updated 2 weeks ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆57Updated 5 years ago
- ☆29Updated 4 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- CRyPTIC data processing pipelines☆34Updated last year
- Functionality for working with pipeline and sample sheet schema files in Nextflow pipelines☆50Updated last week
- In-depth characterization and annotation of differences between two sets of DNA sequences☆63Updated 5 years ago
- A snakemake pipeline to assembly, polishing, correction and quality check from Oxford nanopore reads.☆36Updated 10 months ago
- In-silico PCR, primer design and padlock design for in-situ sequencing☆53Updated last month
- Visualize whole genome alignments as linear maps☆74Updated 3 weeks ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- k-mer learning materials☆83Updated 11 months ago
- tools for assessing the accuracy of genome assemblies☆35Updated last year