nf-core / detaxizer
A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Removal is optional.
☆14Updated this week
Alternatives and similar repositories for detaxizer:
Users that are interested in detaxizer are comparing it to the libraries listed below
- TAXnomic Profile Aggregation and STAndardisation☆34Updated 3 months ago
- Bacterial GWAS analysis☆35Updated last month
- Fast and space-efficient taxonomic classification of long reads☆43Updated 3 months ago
- Remove human reads from a sequencing run☆36Updated 3 months ago
- Snakemake workflow for bacterial genome assembly + polishing for Oxford Nanopore (ONT) sequencing using multiple tools.☆21Updated 9 months ago
- create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks☆43Updated 5 months ago
- Output FASTQ summary statistics in JSON format☆29Updated 2 years ago
- A method of assessing sequence complexity based on kmer frequencies☆30Updated 6 years ago
- ☆16Updated this week
- ☆24Updated 3 years ago
- Params validation plugin for Nextflow pipelines☆48Updated 5 months ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 6 years ago
- ♥ Fast and Accurate Estimation of Evolutionary Distances☆27Updated 8 months ago
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆58Updated 4 months ago
- PoSeiDon: positive selection detection and recombination analysis pipeline☆35Updated 3 months ago
- Toolkit for preparing genomes for submission to NCBI☆29Updated 3 years ago
- Influenza genome analysis Nextflow workflow☆19Updated last week
- tools for assessing the accuracy of genome assemblies☆34Updated 9 months ago
- Remove lambda phage reads from a fastq file☆28Updated 2 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆55Updated last week
- Find Unique genomic Regions☆29Updated 3 weeks ago
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆35Updated 4 months ago
- A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.☆27Updated this week
- Genome size estimation from long read overlaps☆47Updated last month
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆30Updated last month
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆41Updated last month
- Spaghetti: in situ analysis of 16S rRNA amplicons obtained by nanopore sequencing☆15Updated 6 months ago
- Gene-flank analysis tool☆26Updated last month
- Strain-level haplotyping for metagenomes with short or long-reads.☆49Updated 6 months ago
- MAG Circularization Method☆33Updated 2 years ago