MBrooks313
Biologist, Bioinformatics and Computational Biology Neurobiology, Neurodegeneration & Repair Laboratory (NNRL) National Eye Institute, NIH
NEI/NIHBethesda, MD
Pinned Repositories
Biowulf_scripts
Collection of helpful scripts for completing tasks using Biowulf.
CellRanger_exon-intron_counts
This snakemake subsets a CellRanger output BAM file for cells of interest then summarizes the exon and intron aligned read counts per cell barcode.
ChIP-seq
Collection of ChIP-seq related scripts
CutNRun
CutNRun analysis snakemake pipeline.
FIMO
Scripts for running Find Motif analysis.
GATK3
Interactive-3D-Plotting-in-Seurat-3.0.0
This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
nf-core
project_3Dto2D
An R function to project 3D data onto a 2D plane
R_codes
Random R codes
MBrooks313's Repositories
MBrooks313/nf-core
MBrooks313/scRNA-seq
Single cell RNA-seq analysis pipeline.
MBrooks313/R_codes
Random R codes
MBrooks313/GATK3
MBrooks313/RNA-seq
This is the basic bulk RNA sequencing pipeline.
MBrooks313/CellRanger_exon-intron_counts
This snakemake subsets a CellRanger output BAM file for cells of interest then summarizes the exon and intron aligned read counts per cell barcode.
MBrooks313/sci3_RNA_snakemake
This repository is for the adaption of the sci-RNA-seq3 pipeline to snakemake for running on the Biowulf HPC.
MBrooks313/sci-RNA-seq3_pipeline
Processing pipeline scripts for sci-RNA-seq3 (bash, R, python)
MBrooks313/Sequencer_BCL_Fastq
MBrooks313/ChIP-seq
Collection of ChIP-seq related scripts
MBrooks313/CutNRun
CutNRun analysis snakemake pipeline.
MBrooks313/Interactive-3D-Plotting-in-Seurat-3.0.0
This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
MBrooks313/FIMO
Scripts for running Find Motif analysis.
MBrooks313/Biowulf_scripts
Collection of helpful scripts for completing tasks using Biowulf.
MBrooks313/project_3Dto2D
An R function to project 3D data onto a 2D plane