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aptars

Analysis of Pacbio TARgeted Sequencing

ascent

rMATs and IsoformSwitchAnalyeR workflow for multi-group multi-contrasts scenarios

atac-seq-pipeline-based-on-encode

bamixchecker

BAMixChecker: A fast and efficient tool for sample matching checkup

bcell_pipeline

biocode

Bioinformatics code libraries and scripts

bulk-rna-scripts

bulk-rnaseq-wdl

Written by WDL

cbioportal-gsva-analysis

GSVA score and p-value calculation for TCGA studies in cBioPortal

cdna_cupcake

Miscellaneous collection of Python and R scripts for processing Iso-Seq data

celldancer

Predict RNA velocity through deep learning

cgat

Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps

chip-seq-pipeline-based-on-encode

cogent

Coding Genome Reconstruction using Iso-Seq data

containers

copydetect

Code plagiarism detection tool

ebv

public repository for the Flemington lab

fsnviz

Tool for plotting gene fusion events using Circos.

germline_variantcalling

hap-eval

A VCF comparison engine for structual variant benchmarking

hotspot-mutation

isoseq-pipeline_ref

pipeline for working with PacBio long read RNA data using the outputs of isoseq3

isoseq_refs

lake

liu2020proteincell

Pipeline & Reproducible analysis examples for amplicon and metagenome in microbiome

long-read-proteogenomics

A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.

long_read_tools

A database to collate available long read sequencing data analysis tools

ml_rccstaging

ml_tcr

mutation-database

Extract mutation from PDF files