Juke34 / AliNe
Nextflow Alignment Pipeline - from fastq.gz to sorted bam with ease
☆17Updated this week
Alternatives and similar repositories for AliNe
Users that are interested in AliNe are comparing it to the libraries listed below
Sorting:
- A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Remo…☆19Updated 2 weeks ago
- Assembly and scaffolding of haploid / unphased genomes from long ONT or PacBio HiFi reads☆24Updated this week
- Eukaryotic genome annotation software.☆18Updated 2 weeks ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆34Updated 5 months ago
- Snakemake workflow for bacterial genome assembly + polishing for Oxford Nanopore (ONT) sequencing using multiple tools.☆26Updated last year
- A Nextflow pipeline for running synteny analysis.☆14Updated 3 weeks ago
- Bacterial GWAS analysis☆40Updated 3 weeks ago
- Colinear block visualisation tool☆31Updated last year
- Microbial agile accurate SNP Typer☆29Updated last year
- SHOOT.bio - the phylogenetic search engine☆24Updated last year
- Webin command line submission program.☆33Updated last month
- Fast and space-efficient taxonomic classification of long reads☆43Updated last week
- Working with the outputs of sourmash in R☆27Updated last year
- Genome size estimation from long read overlaps☆55Updated last month
- This repository hosts a large collection of Nextflow snippets☆57Updated 3 months ago
- Calculate confidence scores from Kraken2 output☆22Updated last year
- whole genome MLST analysis☆42Updated last month
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆59Updated 8 months ago
- Gene-flank analysis tool☆27Updated 4 months ago
- NGSNGS: Next generation simulator for next generation sequencing data☆50Updated 5 months ago
- k-mer learning materials☆70Updated 3 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated 2 years ago
- BEAV: Bacterial Element Annotation reVamped☆65Updated 6 months ago
- Remove human reads from a sequencing run☆40Updated 7 months ago
- Recombination-free trees☆58Updated last month
- A listing of software, tools and databases useful for virome analysis☆34Updated this week
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 10 months ago
- A Nextflow pipeline for evaluating assembly quality☆33Updated this week
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆59Updated 2 weeks ago
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆38Updated 2 years ago