Alternatives and similar repositories for genomepy

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

• pyranges / pyranges
  Performant Pythonic GenomicRanges
  ☆493Updated this week
• saketkc / pysradb
  Package for fetching metadata and downloading data from SRA/ENA/GEO
  ☆348Updated last month
• maxplanck-ie / snakepipes
  Customizable workflows based on snakemake and python for the analysis of NGS data
  ☆396Updated last week
• pachterlab / ffq
  A tool to find sequencing data and metadata from public databases.
  ☆592Updated last year
• deeptools / pyGenomeTracks
  python module to plot beautiful and highly customizable genome browser tracks
  ☆862Updated last year
• mdshw5 / pyfaidx
  Efficient pythonic random access to fasta subsequences
  ☆482Updated 4 months ago
• gpertea / gffread
  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
  ☆451Updated last year
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆292Updated 2 months ago
• bioconvert / bioconvert
  Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.
  ☆386Updated 7 months ago
• GangCaoLab / CoolBox
  Jupyter notebook based genomic data visualization toolkit.
  ☆249Updated last month
• igvteam / igv-reports
  Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.
  ☆398Updated 2 months ago
• snakemake-workflows / rna-seq-star-deseq2
  RNA-seq workflow using STAR and DESeq2
  ☆351Updated last month
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆278Updated 2 years ago
• daler / pybedtools
  Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
  ☆328Updated 10 months ago
• rvalieris / parallel-fastq-dump
  parallel fastq-dump wrapper
  ☆302Updated 2 years ago
• rpetit3 / fastq-dl
  Download FASTQ files from SRA or ENA repositories.
  ☆363Updated 3 weeks ago
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆558Updated last year
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆218Updated last month
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆250Updated this week
• deeptools / HiCExplorer
  HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
  ☆264Updated 6 months ago
• CompEpigen / figeno
  Tool for plotting sequencing data along genomic coordinates.
  ☆335Updated last month
• FelixKrueger / Bismark
  A tool to map bisulfite converted sequence reads and determine cytosine methylation states
  ☆440Updated 5 months ago
• ISUgenomics / bioinformatics-workbook
  Bioinformatics Workbook repository
  ☆204Updated last month
• daler / gffutils
  GFF and GTF file manipulation and interconversion
  ☆313Updated this week
• j-andrews7 / awesome-bioinformatics-benchmarks
  A curated and summarized list of bioinformatics bench-marking papers and resources.
  ☆354Updated 2 months ago
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆258Updated 4 months ago
• GoekeLab / bioinformatics-workflows
  minimal example implementations for bioinformatics workflow managers
  ☆280Updated 4 years ago
• ablab / IsoQuant
  Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
  ☆202Updated this week
• lmdu / pyfastx
  a python package for fast random access to sequences from plain and gzipped FASTA/Q files
  ☆289Updated 2 weeks ago
• vanheeringen-lab / seq2science
  Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workf…
  ☆166Updated 2 months ago