CDCgov / SanitizeMe
Remove host contaminants from sequencing files
☆9Updated 4 years ago
Alternatives and similar repositories for SanitizeMe:
Users that are interested in SanitizeMe are comparing it to the libraries listed below
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆32Updated 4 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 9 months ago
- ☆26Updated last year
- Read contamination removal☆25Updated last year
- ☆18Updated this week
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆24Updated 6 months ago
- VarSkip multiplex PCR designs for SARS-CoV-2 sequencing☆14Updated 2 years ago
- ASMNGS20 - 2020 Conference Details☆15Updated 2 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- strain-level analysis tools☆36Updated 6 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 6 years ago
- Genomewide Epistasis Analysis on Bacteria☆14Updated 7 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Fast viral consensus genome reconstruction☆22Updated 4 months ago
- Gene-flank analysis tool☆27Updated 4 months ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆34Updated last month
- Intra-species bacterial contamination detection☆25Updated 2 months ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- ☆17Updated 10 months ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 2 years ago
- tool to determine optimal refrerence genome given a set of fasta files☆14Updated last year
- QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run☆11Updated 4 months ago
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Updated 3 years ago
- CFSAN Shigella Typing Pipeline☆14Updated last year
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Static website for the PH4AGE alliance☆12Updated last year
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆41Updated 4 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆23Updated 9 months ago