Alternatives and similar repositories for awesome-nextflow

Users that are interested in awesome-nextflow are comparing it to the libraries listed below

• nextflow-io / patterns
  A curated collection of Nextflow implementation patterns
  ☆366Updated last year
• BioContainers / containers
  Bioinformatics containers
  ☆744Updated last week
• jdidion / biotools
  A list of useful bioinformatics resources
  ☆614Updated 4 months ago
• deeptools / deepTools
  Tools to process and analyze deep sequencing data.
  ☆734Updated last month
• lindenb / jvarkit
  Java utilities for Bioinformatics
  ☆512Updated 2 weeks ago
• maxplanck-ie / snakepipes
  Customizable workflows based on snakemake and python for the analysis of NGS data
  ☆396Updated 2 weeks ago
• deeptools / pyGenomeTracks
  python module to plot beautiful and highly customizable genome browser tracks
  ☆835Updated last year
• chapmanb / bcbb
  Incubator for useful bioinformatics code, primarily in Python and R
  ☆629Updated 6 months ago
• MultiQC / MultiQC
  Aggregate results from bioinformatics analyses across many samples into a single report.
  ☆1,349Updated last week
• crazyhottommy / bioinformatics-one-liners
  Bioinformatics one liners from Ming Tang
  ☆490Updated 4 years ago
• nf-core / sarek
  Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
  ☆468Updated last week
• mdshw5 / pyfaidx
  Efficient pythonic random access to fasta subsequences
  ☆479Updated last week
• Ensembl / ensembl-vep
  The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants
  ☆502Updated last week
• s-andrews / FastQC
  A quality control analysis tool for high throughput sequencing data
  ☆526Updated 2 weeks ago
• pachterlab / kallisto
  Near-optimal RNA-Seq quantification
  ☆696Updated 4 months ago
• cmdcolin / awesome-genome-visualization
  A list of interesting genome browser and genome visualization programs
  ☆999Updated 2 weeks ago
• DaehwanKimLab / hisat2
  Graph-based alignment (Hierarchical Graph FM index)
  ☆509Updated 9 months ago
• snakemake-workflows / rna-seq-star-deseq2
  RNA-seq workflow using STAR and DESeq2
  ☆344Updated last year
• COMBINE-lab / salmon
  🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
  ☆820Updated last year
• nf-core / tools
  Python package with helper tools for the nf-core community.
  ☆265Updated this week
• tanghaibao / jcvi
  Python library to facilitate genome assembly, annotation, and comparative genomics
  ☆846Updated this week
• trinityrnaseq / trinityrnaseq
  Trinity RNA-Seq de novo transcriptome assembly
  ☆866Updated 6 months ago
• jorvis / biocode
  Bioinformatics code libraries and scripts
  ☆542Updated last month
• FelixKrueger / Bismark
  A tool to map bisulfite converted sequence reads and determine cytosine methylation states
  ☆431Updated 3 weeks ago
• CGATOxford / UMI-tools
  Tools for handling Unique Molecular Identifiers in NGS data sets
  ☆517Updated last month
• FelixKrueger / TrimGalore
  A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…
  ☆523Updated 5 months ago
• pachterlab / ffq
  A tool to find sequencing data and metadata from public databases.
  ☆584Updated last year
• nf-core / rnaseq
  RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
  ☆1,089Updated last week
• Illumina / hap.py
  Haplotype VCF comparison tools
  ☆441Updated last year
• gpertea / gffread
  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
  ☆429Updated 8 months ago