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cbioportal_customization

Images for the UCL-CI cBioportal instance

chipseq

Chromatin immunoprecipitation (ChIP-seq) analysis using BWA and MACS2 with QC steps.

clusterflow

A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.

crispr-parsr

Software to parse and analyse deletions (and insertions) from a CRISPR resequencing experiment

ensembl-hive

EnsEMBL Hive - a system for creating and running pipelines on a distributed compute resource

forge2

ginkgo

Cloud-based single-cell copy-number variation analysis tool

learnbioinformatics

Compilation of resources to learn NGS data analysis

legion-buildscripts

Set of build scripts to install BLIC's software on UCL Legion HPC

legion-modulefiles

Module files for BLIC's software on UCL Legion HPC

legion_toolkit

General scripts which make life easier when working on the Legion cluster at UCL

methylseq

Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel

mupexi

MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.

myriad-buildscripts

Set of build scripts to install BLIC's software on UCL Myriad HPC

myriad-modulefiles

Module files for BLIC's software on UCL Myriad HPC

nf-co.re

Code and files for the main nf-core website >>>

nf-ginkgo

NextFlow pipeline for running Ginkgo

rnaseq

RNA sequencing analysis pipeline using STAR or HISAT2, with gene counts and quality control

sarek_v2.2.1

Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing

sarek_v2.3.fix1

Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing

standalone_scripts

Repository to store standalone scripts that do not belong to any bigger package or repository

tcga-ee

TCGA Expression Explorer (shiny app)