lskatz / SneakerNetLinks
QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run
☆11Updated 11 months ago
Alternatives and similar repositories for SneakerNet
Users that are interested in SneakerNet are comparing it to the libraries listed below
Sorting:
- INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search☆15Updated 2 years ago
- Read contamination removal☆25Updated last year
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 4 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 7 years ago
- ☆14Updated 4 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 2 years ago
- Intra-species bacterial contamination detection☆25Updated 9 months ago
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated 2 months ago
- frame-shift correction for long-read (meta)genomics☆33Updated last year
- Colinear block visualisation tool☆31Updated last year
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆13Updated last year
- Assembly based core genome SNP alignments for bacteria☆25Updated 6 years ago
- Predict MLST directly from uncorrected long reads☆27Updated 2 weeks ago
- Sequence-independent identification and removal of adapters/systemic contamination in shotgun sequencing data. https://doi.org/10.1093/bi…☆18Updated 2 years ago
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Updated 11 months ago
- Neptune: Genomic Signature Discovery☆20Updated 11 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆60Updated 3 weeks ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- software to identify primers that can distinguish genomes☆20Updated 3 weeks ago
- UPHL's Reference Free Pipeline☆27Updated 2 weeks ago
- CFSAN Shigella Typing Pipeline☆15Updated 2 years ago
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆12Updated last year
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Updated 4 years ago
- Influenza genome analysis Nextflow workflow☆24Updated 2 months ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Updated 2 years ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆27Updated last month
- Quality control plotting for long reads☆10Updated last year
- Annotated Genome Optimization Using Transcriptome Information☆20Updated 5 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆56Updated 7 months ago