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autoprimer3

A program to automatically generate primer designs to genes and genomic coordinates using primer3

bacta

bam_stuff

some scripts for investigating/fixing BAM files

bedfinder

python module for reading BED genomic interval files into memory and searching

bio-asn1-entrezgene

ASN1 parser for EntrezGene data

bioconda-recipes

Conda recipes for the bioconda channel.

bioperl-live

Core BioPerl 1.x code

cafex

Filter samples in VCF based on genotype metrics

canvas

Canvas - Copy number variant (CNV) calling from DNA sequencing data

canvas_plotter

checklinebreaks

Detect and optionally convert line breaks of a given text file to match system

clinsummarizer

Wrappers and scripts for targetted sequencing analysis

clinvar

Parsing ClinVar data

cnv-seq-wrapper

Wrapper scripts for CNV-seq

cnv_intersect

Find overlapping regions from multiple CNV VCFs

cnvnatorwrapper

Simple wrapper script for running cnvnator automatically on multiple bam files.

codingtogenomic

Retrieve genomic location for a given cDNA or CDS coordinate.

columnselector

Outputs named columns from a text file on the commandline

convertcaddscore

Converts CADD score coordinates from GRCh37 to hg38

coolbox

Jupyter notebook based genomic data visualization toolkit.

copywriter

DNA copy number detection from off-target sequence data

create_skeleton_python_project

create simple directory structure and some template files for python projects

crispr_accessories

Simple accessory tools for generating crispr oligos

crossmap

Fork of CrossMap (http://crossmap.sourceforge.net/) with some input/output niceties

dapperlgenomiclib

Perl modules for various genomic data queries

dna-seq-gatk-variant-calling

This Snakemake pipeline implements the GATK best-practices workflow

eddie3clusterscripts

eddie_genomestrip_wrapper

Scripts and instructions for getting GenomeSTRiP to run on EDDIE3 at UoE

enatools

Getting data from EBI ENA

ensembl_to_refseq

Simple tool to convert ensembl IDs to RefSeq using the Ensembl Perl API