Pinned Repositories
bio-ansible
Proof of concept to use ansible + Lmod to deploy a bioinformatics server
celaref
learning-resource-links
An awesome list of learning resources for bioinformatics, genomics and computational biology
LFQ-Analyst
The repo for LFQ-Analyst
polyApipe
polyApipe
provean
Fork of Provean tool from : http://provean.jcvi.org
r-more
Further topics in R.
RNAsik-pipe
RNAsik - more than just a pipeline
RSeQC
fork of RSeQC python RNAseq metrics suit of tools
varistran
R package providing Variance Stabilizing Transformations appropriate for RNA-Seq data
Monash Bioinformatics Platform's Repositories
MonashBioinformaticsPlatform/LFQ-Analyst
The repo for LFQ-Analyst
MonashBioinformaticsPlatform/bio-ansible
Proof of concept to use ansible + Lmod to deploy a bioinformatics server
MonashBioinformaticsPlatform/learning-resource-links
An awesome list of learning resources for bioinformatics, genomics and computational biology
MonashBioinformaticsPlatform/RNAsik-pipe
RNAsik - more than just a pipeline
MonashBioinformaticsPlatform/polyApipe
polyApipe
MonashBioinformaticsPlatform/provean
Fork of Provean tool from : http://provean.jcvi.org
MonashBioinformaticsPlatform/r-more
Further topics in R.
MonashBioinformaticsPlatform/laxy
Laxy Genomics Pipelines
MonashBioinformaticsPlatform/rocker-ultra
Containerised RStudio with bells+whistles for HPC and everywhere
MonashBioinformaticsPlatform/slurry
A web accessible tool for looking at a Slurm queue and the associated priorities
MonashBioinformaticsPlatform/enrichment_analysis_workshop
A base for enrichment analysis workshop material
MonashBioinformaticsPlatform/laxyapi-r
Interace with the Laxy REST API in R. Download your job files.
MonashBioinformaticsPlatform/R-ShinyIntro-MBP
https://monashbioinformaticsplatform.github.io/R-ShinyIntro-MBP/
MonashBioinformaticsPlatform/trimviz
Visualisation of trimming or soft-clipping of short sequence reads
MonashBioinformaticsPlatform/RNAseq_workshop_2024
MonashBioinformaticsPlatform/Single-Cell-Workshop
Half day workshop with 10x
MonashBioinformaticsPlatform/Depmap
Benjamin's Depmap code
MonashBioinformaticsPlatform/PBMC-Single-Cell-Workshop-2022
This workshop, conducted by the Monash Bioinformatics Platform, will cover the Seurat 3K PBMC tutorial with an extended section on how to use third party tools SingleR and Harmony
MonashBioinformaticsPlatform/alphafold
Open source code for AlphaFold
MonashBioinformaticsPlatform/configs
Config files used to define parameters specific to compute environments at different Institutions
MonashBioinformaticsPlatform/containers
A repository for all our tool Dockerfiles
MonashBioinformaticsPlatform/crispr_results
Crispr report post alignment + freebayes, quality/depth thresholding
MonashBioinformaticsPlatform/data-carpentry-genomics-ansible
An Ansible playbook for setting up Data Carpentry Genomics instances.
MonashBioinformaticsPlatform/enrichment_analysis_workshop_2024
A base for enrichment analysis workshop material
MonashBioinformaticsPlatform/Functional_Enrichment_BioCommons_2024
Materials and resources for a 2-day workshop on functional enrichment analysis, organised by Australian BioCommons and delivered by Monash University and the University of Sydney.
MonashBioinformaticsPlatform/Green_sea_turtle_RNA-Seq
ORA and GSEA analysis of Green sea turtle embryo RNA-Seq
MonashBioinformaticsPlatform/mbp-report
report generation script, wrapper around pandoc
MonashBioinformaticsPlatform/Nov2023_scRNAseq_workshop
MonashBioinformaticsPlatform/Refold-2
Protein Refolding Record Database Revamp
MonashBioinformaticsPlatform/sc-hyp-org
This repository contains detailed code for the analysis of scRNAseq data