bionitio-team / bionitio
Demonstrating best practices for bioinformatics command line tools
☆116Updated 4 years ago
Alternatives and similar repositories for bionitio:
Users that are interested in bionitio are comparing it to the libraries listed below
- GATK RNA-Seq Variant Calling in Nextflow☆133Updated 2 years ago
- Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:☆86Updated last year
- Lima - Demultiplex Barcoded PacBio Samples☆66Updated last week
- Sequana: a set of Snakemake NGS pipelines☆146Updated 2 months ago
- A post sequencing QC tool for Oxford Nanopore sequencers☆96Updated last month
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆140Updated 3 weeks ago
- Very simple, pure python, BAM file reader☆79Updated 6 years ago
- Tip and tricks for BAM files☆85Updated 6 years ago
- BAM Statistics, Feature Counting and Annotation☆149Updated 2 months ago
- Genomic Interactive Visualization Engine☆145Updated 2 years ago
- Variant Calling Pipeline Using GATK4 and Nextflow☆54Updated 2 years ago
- Snakemake pipelines for nanopore sequencing data archiving and processing☆90Updated 3 years ago
- ☆39Updated 3 weeks ago
- Galaxy RNA workbench☆40Updated 4 years ago
- Nextflow pipeline for analysis of direct RNA Nanopore reads☆102Updated last week
- A collection of scripts to assist in the retrieval of data from the ENA Browser☆81Updated last year
- A small-RNA sequencing analysis pipeline☆84Updated this week
- Software for clustering de novo assembled transcripts and counting overlapping reads☆71Updated 3 years ago
- ☆120Updated 5 months ago
- Merging paired-end reads and removing adapters☆44Updated last month
- ShortStack: Comprehensive annotation and quantification of small RNA genes☆92Updated 6 months ago
- An imagemagick-like frontend to Biopython SeqIO☆115Updated last year
- Python programs for processing GFF3 files☆96Updated last year
- Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.☆51Updated 6 years ago
- Trinotate source code☆80Updated last year
- BigWig and BAM utilities☆96Updated last year
- Tips for Nextflow and cheatsheet for channel operation☆73Updated 8 months ago
- Assembly and intrahost/low-frequency variant calling for viral samples☆137Updated this week
- igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"☆126Updated last year
- don't get DUP'ed or DEL'ed by your putative SVs.☆105Updated 4 years ago