KThorellGroup / BACTpipeLinks
BACTpipe: An assembly and annotation pipeline for bacterial genomics
☆20Updated 8 months ago
Alternatives and similar repositories for BACTpipe
Users that are interested in BACTpipe are comparing it to the libraries listed below
Sorting:
- Output FASTQ summary statistics in JSON format☆30Updated 2 years ago
- Read contamination removal☆25Updated last year
- Analyze a set of genomes with the anvi'o pangenome pipeline☆17Updated last year
- Influenza genome analysis Nextflow workflow☆23Updated last week
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated 2 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆46Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Finding prophage regions in bacterial genomes using brute force☆22Updated 2 years ago
- Intra-species bacterial contamination detection☆25Updated 5 months ago
- frame-shift correction for long-read (meta)genomics☆34Updated last year
- software to identify primers that can distinguish genomes☆21Updated 6 months ago
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆11Updated last year
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- ☆26Updated 2 years ago
- CAMITAX: Taxon labels for microbial genomes☆30Updated last year
- Neptune: Genomic Signature Discovery☆20Updated 8 months ago
- Plot genome alignment figure using progressiveMauve & genoPlotR☆22Updated 3 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 5 months ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆26Updated 3 weeks ago
- Resolving Species Level Classification Using Emu☆14Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated 2 years ago
- ☆22Updated 2 years ago
- QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run☆11Updated 8 months ago
- ☆14Updated 4 years ago
- Lowest Common Ancestor from a SAM/BAM/CRAM alignment file☆9Updated 11 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆23Updated 2 years ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆24Updated 2 years ago
- An `R` package for various phylogenetic and evolutionary biology data manipulations☆12Updated 7 years ago