tomdeman-bio / Sequence-scriptsLinks
Random utility scripts for genomics data
☆12Updated 4 years ago
Alternatives and similar repositories for Sequence-scripts
Users that are interested in Sequence-scripts are comparing it to the libraries listed below
Sorting:
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 3 weeks ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- Intra-species bacterial contamination detection☆25Updated this week
- ☆19Updated 2 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 6 years ago
- An `R` package for various phylogenetic and evolutionary biology data manipulations☆12Updated 7 years ago
- Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to constr…☆33Updated 2 years ago
- Predict plasmids from uncorrected long read data☆41Updated 3 months ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- ☆37Updated 3 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆43Updated 5 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆61Updated 2 months ago
- Metagenomic binning suite☆29Updated 3 years ago
- VarSkip multiplex PCR designs for SARS-CoV-2 sequencing☆14Updated 3 years ago
- MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.☆15Updated 3 years ago
- Spaghetti: in situ analysis of 16S rRNA amplicons obtained by nanopore sequencing☆19Updated last year
- Metagenomic Analysis in Real Time☆29Updated 2 months ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 6 months ago
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Updated last year
- Strain Prediction and Analysis with Representative SEquence☆19Updated last year
- CFSAN Shigella Typing Pipeline☆15Updated 2 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆58Updated 4 years ago
- ☆20Updated 9 years ago
- Bacterial genomes finishing tool for structural insights on draft genomes☆23Updated 2 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 8 years ago
- Get microbial sequence data easier and faster☆28Updated 6 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆33Updated last year
- ☆11Updated 11 months ago
- Influenza genome analysis Nextflow workflow☆24Updated last week