xguse / cookiecutter-snakemake-analysis-pipeline
A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.
☆16Updated 8 years ago
Alternatives and similar repositories for cookiecutter-snakemake-analysis-pipeline:
Users that are interested in cookiecutter-snakemake-analysis-pipeline are comparing it to the libraries listed below
- Making Snakemake workflows into full-fledged command line tools since 1999.☆51Updated 6 years ago
- Flexible omics pipeline☆18Updated 8 months ago
- blast, shmlast☆22Updated 4 years ago
- A tiny package manager for crucial unix and bioinformatics tools☆27Updated 9 years ago
- Demonstrating best practices for bioinformatics command line tools☆26Updated 4 years ago
- Customer workshop materials☆17Updated last year
- prioritize effects of variant annotations from VEP, SnpEff, et al.☆33Updated 3 months ago
- Stupid Simple Structural Variant View☆25Updated 8 years ago
- TreeGrafter is a new software tool for annotating uncharacterized protein sequences, using annotated phylogenetic trees.☆11Updated 4 years ago
- Precursor to SnakeChunks, see https://github.com/SnakeChunks/SnakeChunks. This project has moved and will no longer be edited here.☆11Updated 7 years ago
- Accurate and fast taxonomic classification using pseudoaligning☆21Updated 7 years ago
- Mostly deprecated in favor of : https://github.com/hbc/bcbioRNASeq. Quality control, differential gene/transcript expression and pathway …☆24Updated 7 years ago
- Build an index for your BAM Index (BAI)☆17Updated 9 years ago
- ☆10Updated 9 years ago
- ☆13Updated 7 years ago
- Samwell: a python package for using genomic files... well☆20Updated 2 years ago
- R Interface to the NCBI SRA metadata☆23Updated 6 years ago
- Convert, explore, and manipulate GFF and GTF files (used in bioinformatics) using a sqlite-based approach☆35Updated 14 years ago
- Color DNA/RNA bases in terminal output☆20Updated 7 years ago
- Automatically source dotenv files into your Nextflow scope☆9Updated 2 weeks ago
- Intro to workflows for efficient automated data analysis, using snakemake.☆32Updated 5 years ago
- Nextflow workshop 2018 -- Training pages -> https://nextflow-io.github.io/nf-hack18/☆18Updated 6 years ago
- Nextflow workflow for automatic repeat detection, classification and masking☆13Updated 7 years ago
- NGSTools☆16Updated 8 years ago
- Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model☆27Updated last year
- Modular snakemake workflow for assembly-based metagenomics☆10Updated 7 years ago
- Work for the tree sequence inference paper.☆23Updated 4 years ago
- Access nextflow variables from python scripts or notebooks☆21Updated 3 years ago
- A program for fast and accurate genome-guided transcripts reconstruction and quantification from RNA-seq (Supporting Pacbio single-end)☆23Updated 3 years ago
- Build sourmash databases for genbank.☆12Updated last year