Alternatives and similar repositories for pypiper

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

• pepkit / peppy
  Project metadata manager for PEPs in Python
  ☆38Updated 11 months ago
• brentp / python-giggle
  python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.
  ☆16Updated 7 years ago
• BiocPy / GenomicRanges
  Container class to represent genomic locations and support genomic analysis
  ☆25Updated this week
• pepkit / looper
  A job submitter for Portable Encapsulated Projects
  ☆22Updated 5 months ago
• bioforensics / rsidx
  Library for indexing VCF files for random access searches by rsID
  ☆17Updated last month
• bionitio-team / bionitio-python
  Demonstrating best practices for bioinformatics command line tools
  ☆26Updated 5 years ago
• mdshw5 / simplesam
  Simple pure Python SAM parser and objects for working with SAM records
  ☆64Updated 3 years ago
• TheJacksonLaboratory / pyBedGraph
  A Python package for fast operations on 1-dimensional genomic signal tracks
  ☆24Updated 5 years ago
• pyranges / bamread
  Bam to Pandas DataFrame, quickly
  ☆13Updated 3 months ago
• medvedevgroup / varmatch
  robust matching of small variant datasets using flexible scoring schemes
  ☆11Updated 5 years ago
• czbiohub-sf / cerebra
  A tool for fast and accurate summarizing of variant calling format (VCF) files
  ☆61Updated 2 years ago
• ncbi / JUDI
  This repository contains the source code of JUDI, a workflow management system for developing complex bioinformatics software with many p…
  ☆34Updated 3 years ago
• brentp / geneimpacts
  prioritize effects of variant annotations from VEP, SnpEff, et al.
  ☆34Updated 8 months ago
• nh13 / snakeparse
  Making Snakemake workflows into full-fledged command line tools since 1999.
  ☆52Updated 7 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆29Updated last year
• cgat-developers / cgat-core
  Core functionality of the CGAT code
  ☆33Updated 2 weeks ago
• lucapinello / Haystack
  Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline
  ☆31Updated 7 years ago
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 4 years ago
• nilesh-tawari / ChronQC
  Manuscript describing ChronQC is now available online in Bioinformatics
  ☆18Updated 6 years ago
• InscriptaLabs / BioCantor
  ☆22Updated last year
• vpc-ccg / calib
  Calib clusters barcode tagged paired-end reads based on their barcode and sequence similarity.
  ☆39Updated 2 years ago
• BD2KGenomics / toil-scripts
  Toil workflows for common genomic pipelines
  ☆33Updated 5 years ago
• rraadd88 / beditor
  A Computational Workflow for Designing Libraries of sgRNAs for CRISPR-Mediated Base Editing, and much more
  ☆19Updated last year
• manzt / pygv
  a minimal, scriptable genome browser for python
  ☆51Updated 8 months ago
• lgautier / fastq-and-furious
  Efficient handling of FASTQ files from Python
  ☆51Updated last month
• PMCC-BioinformaticsCore / janis
  [Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows
  ☆44Updated last year
• lcdb / lcdb-wf
  Robust, tested workflows for RNA-seq, ChIP-seq and other high-throughput sequencing analysis
  ☆23Updated 2 weeks ago
• brentp / bw-python
  python wrapper to dpryan79's bigwig library using cffi
  ☆19Updated 9 years ago
• loosolab / UROPA
  Universal RObust Peak Annotator
  ☆16Updated last year
• Clinical-Genomics / chanjo
  Chanjo provides a better way to analyze coverage data in clinical sequencing.
  ☆51Updated 8 months ago