lskatz / SneakerNetLinks
QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run
☆11Updated 8 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
- INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search☆15Updated 2 years ago
- ☆14Updated 4 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 7 years ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆26Updated 3 weeks ago
- Intra-species bacterial contamination detection☆25Updated 5 months ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- CFSAN Shigella Typing Pipeline☆14Updated 2 years ago
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆9Updated 4 years ago
- Genome size estimation from long read overlaps☆59Updated 2 weeks ago
- Colinear block visualisation tool☆31Updated last year
- software to identify primers that can distinguish genomes☆21Updated 6 months ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆46Updated 2 years ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆26Updated last year
- Sequence-independent identification and removal of adapters/systemic contamination in shotgun sequencing data. https://doi.org/10.1093/bi…☆17Updated 2 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆12Updated last year
- Output FASTQ summary statistics in JSON format☆30Updated 2 years ago
- Annotated Genome Optimization Using Transcriptome Information☆20Updated 5 years ago
- Remove human reads from a sequencing run☆40Updated last week
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated last month
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Updated 8 months ago
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Updated 4 years ago
- tool to determine optimal refrerence genome given a set of fasta files☆15Updated 2 years ago
- frame-shift correction for long-read (meta)genomics☆34Updated last year
- Fast and space-efficient taxonomic classification of long reads☆43Updated 3 months ago
- VarSkip multiplex PCR designs for SARS-CoV-2 sequencing☆14Updated 3 years ago
- compare sequences to a shared root reference sequence.☆24Updated 3 years ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆27Updated 2 months ago