lskatz / SneakerNetLinks
QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run
☆11Updated 6 months ago
Alternatives and similar repositories for SneakerNet
Users that are interested in SneakerNet are comparing it to the libraries listed below
Sorting:
- Read contamination removal☆25Updated last year
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆9Updated 4 years ago
- CFSAN Shigella Typing Pipeline☆14Updated last year
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆25Updated 8 months ago
- INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search☆15Updated 2 years ago
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Updated 6 months ago
- ☆14Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 7 years ago
- Output FASTQ summary statistics in JSON format☆30Updated 2 years ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆26Updated last year
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆11Updated last year
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- Intra-species bacterial contamination detection☆25Updated 4 months ago
- Quality control plotting for long reads☆10Updated last year
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆24Updated last year
- transposable element typing pipeline☆18Updated last year
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated 2 years ago
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- Rapid discovery of reciprocal best blast pairs.☆10Updated 7 months ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆11Updated last year
- kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding☆23Updated last year
- Colinear block visualisation tool☆31Updated last year
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆19Updated last month
- Variant call verification☆16Updated last month
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆10Updated 4 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated 2 years ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- tool to determine optimal refrerence genome given a set of fasta files☆15Updated 2 years ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated last month