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IgDiscover

Identifies germline V genes from expressed repertoires to a specificity of 100%. IgDiscover uses a cluster identification process to produce candidate sequences that, once filtered, results in individualized germline V gene databases. IgDiscover was tested in multiple species, validated by genomic cloning and cross library comparisons and produces comprehensive gene databases even where limited genomic sequence is available. IgDiscover analysis of the allelic content of the Indian and Chinese-origin rhesus macaques reveals high levels of immunoglobulin gene diversity in this species.

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IgDiscover classification

IgDiscover specifications

Software type:
Package/Module
Restrictions to use:
None
Input format:
FASTQ, FASTA
Operating system:
Unix/Linux, Mac OS
License:
MIT License
Version:
0.6.0
Maintained:
Yes
Interface:
Command line interface
Input data:
An RNA sequence (raw).
Output data:
A gene expression profile.
Programming languages:
Python
Computer skills:
Advanced
Stability:
Stable
Source code URL:
https://github.com/NBISweden/IgDiscover/
Conda:
https://bioconda.github.io/recipes/igdiscover/README.html

IgDiscover support

Maintainer

  • Martin Corcoran <>

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Publications

Funding source(s)

This work was funded by an NIH P01 grant AI104722 (HIVRAD) and a grant from the International AIDS Vaccine Initiative (IAVI), a Karolinska Institutet KID grant, Knut and Alice Wallenberg Foundation to the Wallenberg Advanced Bioinformatics Infrastructure.

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