Oshlack

Pinned Repositories

Clinker
Gene Fusion Visualiser
Language:Python51 8 2912
Corset
Software for clustering de novo assembled transcripts and counting overlapping reads
Language:C++69 8 2019
JAFFA
JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts, then searches for gene fusions
Language:C++88 7 9721
Lace
Building SuperTranscripts: A linear representation of transcriptome data
Language:Python67 11 3919
MINTIE
Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
Language:Python34 7 377
necklace
Combine reference and assembled transcriptomes for RNA-Seq analysis
Language:C++20 4 185
speckle
R package for specialised analysis of single cell data
Language:R36 11 135
splatter
Simple simulation of single-cell RNA sequencing data
Language:R222 6 15157
splatter-paper
Data and analysis for the Splatter paper
Language:R28 2 011
STRetch
Method for detecting STR expansions from short-read sequencing data
Language:Python62 7 3815

Oshlack's Repositories

Oshlack/splatter-paper
Data and analysis for the Splatter paper
Language:R28 2 011
Oshlack/MethylationAnalysisWorkflow
A cross-package Bioconductor workflow for analysing methylation array data
Language:TeX11 2 014
Oshlack/GeneLengthBias-scRNASeq
Analysis scripts for eight different scRNASeq datasets that differ in terms of protocol, species and cell type
9 8 02
Oshlack/superTranscript_paper_code
This repository contains code and scripts used to generate and analyse data for the superTranscript/Lace paper.
Language:Jupyter Notebook9 7 45
Oshlack/scRNAtools-paper
A review of tools for analysing single-cell RNA-seq data
Language:TeX6 3 03
Oshlack/Oncopipe
Clinical pipeline for detecting gene fusions in RNAseq data utilising JAFFA.
Language:Groovy1 9 01
Oshlack/clustree-paper
Paper describing the clustering tree visualisation
Language:TeX
Oshlack/Farlie_emu_wing_RNASeq_analysis
This repository contains code from the paper Farlie et al.
Language:Jupyter Notebook