Data

Tools

Indexes

Applications

Experiments

Open Source Science

relocate3

ReLocaTE code for identifying Transposons (TE) in genomes using re-sequencing data

https://github.com/stajichlab/relocate3

Science Score: 44.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (2.5%) to scientific vocabulary
Last synced: 6 months ago · JSON representation ·

Repository

ReLocaTE code for identifying Transposons (TE) in genomes using re-sequencing data

Basic Info
  • Host: GitHub
  • Owner: stajichlab
  • License: mit
  • Language: Python
  • Default Branch: main
  • Size: 26.5 MB
Statistics
  • Stars: 3
  • Watchers: 2
  • Forks: 1
  • Open Issues: 4
  • Releases: 0
Created about 3 years ago · Last pushed over 1 year ago
Metadata Files
Readme License Citation

README.md

RelocaTE3

RelocaTE code for identifying Transposon polymorphism using re-sequencing data

Installation

Use the following command to install the package for development.

pip install -e .

Owner

  • Name: Jason Stajich Lab at UC Riverside
  • Login: stajichlab
  • Kind: organization
  • Email: jason.stajich@ucr.edu
  • Location: RIverside, CA

Evolutionary Genomics of Fungi projects, data and software

Citation (CITATION.cff) 

# This CITATION.cff file was generated with cffinit.
# Visit https://bit.ly/cffinit to generate yours today!

cff-version: 1.2.0
title: RelocaTE3
message: >-
  If you use this software, please cite it using the
  metadata from this file.
type: software
authors:
  - given-names: Jason E.
    family-names: Stajich
    email: jasonstajich.phd@gmail.com
    affiliation: University of California-Riverside
    orcid: 'https://orcid.org/0000-0002-7591-0020'
  - given-names: Nathan
    family-names: Mathieu
    email: nmath020@ucr.edu
    affiliation: University of California-Riverside
    orcid: 'https://orcid.org/0000-0002-4822-5095'
repository-code: 'https://github.com/stajichlab/RelocaTE3'
abstract: >-
  RelocaTE software tool for transposon transposition data
  detection in population resequencing data.
keywords:
  - transposon
  - bioinformatics
  - genomics
  - population biology
license: MIT
commit: XXXX
version: '0.1'
date-released: '2024-07-01'

GitHub Events

Total
Last Year

Dependencies

pyproject.toml pypi
  • biopython *
  • collections *
  • multiprocessing *
  • pybedtools *
requirements.txt pypi
  • biopython >=1.81
  • pybedtools *
  • pysam *