Alternatives and similar repositories for panoptes:

Users that are interested in panoptes are comparing it to the libraries listed below

• snakemake-workflows / cookiecutter-snakemake-workflow
  A cookiecutter template for Snakemake workflows
  ☆57Updated 3 years ago
• snakemake-workflows / dna-seq-varlociraptor
  A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, …
  ☆83Updated this week
• marcelm / dnaio
  Efficiently read and write sequencing data from Python
  ☆61Updated 3 months ago
• mdshw5 / simplesam
  Simple pure Python SAM parser and objects for working with SAM records
  ☆63Updated 2 years ago
• PMCC-BioinformaticsCore / janis
  [Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows
  ☆42Updated last year
• refgenie / refgenie
  Reference genome resource manager
  ☆74Updated last year
• fulcrumgenomics / fqtk
  Fast FASTQ sample demultiplexing in Rust.
  ☆60Updated this week
• slowkow / pytabix
  Retrieve data in genomic intervals with a Python interface for tabix.
  ☆83Updated 7 years ago
• brentp / jigv
  igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
  ☆126Updated last year
• dputhier / pygtftk
  A python package and a set of shell commands to handle GTF files
  ☆46Updated 7 months ago
• mrvollger / rustybam
  bioinformatics toolkit in rust
  ☆86Updated 9 months ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆93Updated 10 months ago
• zavolanlab / zarp
  The Zavolab Automated RNA-seq Pipeline
  ☆35Updated last month
• snakemake / snakeface
  The snakemake interface, currently works like a notebook (under development)
  ☆18Updated 3 years ago
• BioContainers / multi-package-containers
  Testing building mulled containers for multi-requirement tools.
  ☆70Updated last week
• manzt / pygv
  a minimal, scriptable genome browser for python
  ☆49Updated last month
• acg-team / tral
  Tandem Repeat Annotation Library
  ☆24Updated last year
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆75Updated last month
• grst / nxfvars
  Access nextflow variables from python scripts or notebooks
  ☆21Updated 3 years ago
• MultiQC / test-data
  Test data for MultiQC.
  ☆22Updated this week
• vembrane / vembrane
  vembrane filters VCF records using python expressions
  ☆58Updated 4 months ago
• nf-core / airrflow
  B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
  ☆59Updated 3 weeks ago
• jdidion / atropos
  An NGS read trimming tool that is specific, sensitive, and speedy. (production)
  ☆121Updated last year
• Clinical-Genomics / MIP
  Mutation Identification Pipeline. Read the latest documentation:
  ☆44Updated 11 months ago
• sequana / sequana
  Sequana: a set of Snakemake NGS pipelines
  ☆145Updated last week
• bentsherman / nf-boost
  Experimental features for Nextflow
  ☆38Updated last month
• telatin / seqfu2
  seqfu - Sequece Fastx Utilities
  ☆113Updated 3 weeks ago
• Snakemake-Profiles / lsf
  Snakemake profile for running jobs on an LSF cluster
  ☆36Updated 6 months ago
• alexcoppe / bio-dockers
  Bio-dockers: dockerized bioinformatic tools
  ☆32Updated last month
• stevetsa / awesome-microbes
  List of computational resources for analyzing microbial sequencing data.
  ☆66Updated last year