moiexpositoalonsolab / grenepipeLinks
A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles - for sampled individuals, and for pool sequencing.
☆106Updated 2 months ago
Alternatives and similar repositories for grenepipe
Users that are interested in grenepipe are comparing it to the libraries listed below
Sorting:
- A set of functions to visualise genotypes based on a VCF☆87Updated 3 years ago
- Dfam Transposable Element Tools Docker container.☆100Updated last week
- Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data☆117Updated 2 years ago
- List of genome assembly tools☆76Updated 3 weeks ago
- MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data☆109Updated 3 weeks ago
- Tools for plotting methylation data in various ways☆160Updated last month
- accurate LiftOver tool for new genome assemblies☆134Updated last year
- A pipeline to generate a phylogenetic tree from huge SNP data☆91Updated last year
- Snakemake pipelines for nanopore sequencing data archiving and processing☆91Updated 3 years ago
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆142Updated 2 months ago
- ☆79Updated 4 years ago
- Meta-pipeline to identify transposable element insertions using next generation sequencing data☆103Updated 3 months ago
- Constructing a pangenome gene graph☆194Updated last month
- ☆216Updated 7 months ago
- Wally: Visualization of aligned sequencing reads and contigs☆117Updated 5 months ago
- source code for EVM☆119Updated 9 months ago
- Hierarchical Alignment Format☆171Updated 2 weeks ago
- Research release basecalling models and configurations☆115Updated 4 months ago
- PacBio Assembly Tool Suite: Reads in ⇨ Assembly out☆118Updated 5 years ago
- Python programs for processing GFF3 files☆99Updated last year
- GenMap - Fast and Exact Computation of Genome Mappability☆112Updated last year
- a tool for inferring species tree from sequencing reads☆151Updated 3 weeks ago
- Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…☆145Updated 2 months ago
- Assembly statistic visualisation☆90Updated last year
- ☆123Updated last month
- Same species annotation lift over pipeline.☆98Updated 2 years ago
- Snakemake workflow for highly parallel variant calling designed for ease-of-use in non-model organisms.☆82Updated 3 weeks ago
- ☆45Updated 3 weeks ago
- Software for clustering de novo assembled transcripts and counting overlapping reads☆73Updated 3 years ago
- A fast whole-genome aligner based on de Bruijn graphs☆152Updated 2 months ago