Alternatives and similar repositories for panoptes

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

• PMCC-BioinformaticsCore / janis
  [Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows
  ☆44Updated 2 years ago
• refgenie / refgenie
  Reference genome resource manager
  ☆74Updated last year
• marcelm / dnaio
  Efficiently read and write sequencing data from Python
  ☆67Updated 2 weeks 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, …
  ☆86Updated last week
• goodwright / nextflow.py
  Python wrapper around Nextflow.
  ☆60Updated 2 months ago
• seppinho / mutserve
  mtDNA Variant Caller
  ☆34Updated 10 months ago
• snakemake / snakemake-github-action
  A Github action for running a Snakemake workflow
  ☆60Updated 4 months ago
• slowkow / pytabix
  Retrieve data in genomic intervals with a Python interface for tabix.
  ☆82Updated 8 years ago
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• mdshw5 / simplesam
  Simple pure Python SAM parser and objects for working with SAM records
  ☆63Updated 3 years ago
• zavolanlab / zarp
  The Zavolab Automated RNA-seq Pipeline
  ☆35Updated 3 months ago
• dputhier / pygtftk
  A python package and a set of shell commands to handle GTF files
  ☆49Updated last year
• MultiQC / MegaQC
  Web application to collect and visualise data across multiple MultiQC runs.
  ☆95Updated 10 months ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆81Updated 9 months ago
• rhpvorderman / sequali
  Fast sequencing data quality metrics
  ☆28Updated last month
• SciLifeLab / TIDDIT
  TIDDIT - structural variant calling
  ☆77Updated 6 months ago
• alexcoppe / bio-dockers
  Bio-dockers: dockerized bioinformatic tools
  ☆32Updated 2 months ago
• nextflow-io / nf-prov
  Nextflow plugin to render provenance reports for pipeline runs. Supports standard formats such as BioCompute Object and Workflow Run RO-C…
  ☆30Updated this week
• Snakemake-Profiles / doc
  Documentation of the Snakemake-Profiles project.
  ☆54Updated 3 years ago
• nh13 / snakeparse
  Making Snakemake workflows into full-fledged command line tools since 1999.
  ☆51Updated 7 years ago
• BioContainers / multi-package-containers
  Testing building mulled containers for multi-requirement tools.
  ☆80Updated last week
• vembrane / vembrane
  vembrane filters VCF records using python expressions
  ☆65Updated last month
• grst / nxfvars
  Access nextflow variables from python scripts or notebooks
  ☆20Updated 4 years ago
• grst / snakemake_nextflow_wdl
  simple comparison of snakemake, nextflow and cromwell/wdl
  ☆50Updated 5 years ago
• sigven / gvanno
  Generic human DNA variant annotation pipeline
  ☆58Updated last year
• roryk / tiny-test-data
  Super small biological datasets for unit testing
  ☆62Updated 5 years ago
• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆54Updated 2 weeks ago
• igvteam / igv-notebook
  Module for embedding igv.js in an IPython notebook
  ☆79Updated 8 months ago
• vsbuffalo / granges
  A Rust library and command line tool for working with genomic ranges and their data.
  ☆100Updated last year
• jdidion / atropos
  An NGS read trimming tool that is specific, sensitive, and speedy. (production)
  ☆125Updated 6 months ago