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bedparse's Introduction

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Bedparse

Bedparse is a simple python module and CLI tool to perform common operations on BED files.

It offers the following functionality:

  • Filtering of transcripts based on annotations
  • Joining of annotation files based on transcript names
  • Conversion from GTF to BED format
  • Conversion from UCSC to Ensembl chromosome names (and viceversa)
  • Conversion from bed12 to bed6
  • Promoter reporting
  • Intron reporting
  • CDS reporting
  • UTR reporting

Installation

pip install bedparse

Documentation

bedparse.rtfd.io

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