robsyme/fasta_util

Stars
1
Language
Ruby
License
MIT License
Created over 13 years ago
Updated over 12 years ago

robsyme/fasta_util

robsyme

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

An easy way of performing some common operations on fasta files

nextflow-annotate

Workflows I find helpful for fungal genome annotation

nf-repeatmasking

Nextflow workflow for automatic repeat detection, classification and masking

succinctBitSet

Fast rank and select operations on indexed bitsets.

obo

A parser for the OBO flat file format

nf-annotate

Fungal genome annotation pipeline

robsyme.com

Source for personal site

wavelettree

Rough sketches of wavelet trees for providing fast rank queries on non-binary alphabets.

mitehunter

A clone of MITE-Hunter from Yujun Han and Susan Wessler - used for bugfixing

bioruby-chado

A library that allows you to pull ruby objects out of a Chado-schema database

workflows-proteogenomics

Versioned, shareable and replicable workflows for proteogenomics.

cegma-docker

Docker container for running CEGMA

polymer-region-selector

A widget that selects max and min bounds on a genomic sequence of a given length.

gortex

Tool to pull out species-specific sequence from coloured graphs generated by Cortex-var

docker-REPET

The REPET package in a container.

GeneMark-Extractor

Tools for taking GeneMark output and pulling out the relevant sequences from the original fasta file.

busco

https://gitlab.com/ezlab/busco

acnfp-trans-counter

A very quick and dirty project to help out a colleague

bioruby-lazyblastxml

A plugin that allows you to parse large blast XML output files lazily, reading only what you need.

Parastagonospora_nodorum_SN15

Storage and edit history for ACNFP gene models.

comparative-sketch

A very quick and dirty sketch to quickly visualise large-scale genome comparisons in non-model organisms. Also might be handy for creating SVG drafts which can be cleaned up in Inkscape for publication.