migbro Goto Github PK
Name: Miguel Brown
Type: User
Company: @d3b-center @kids-first
Bio: Bioinformatics Engineer, lead developer within BIXU team at the Center for Data Driven Discovery (D3b) at the Children's Hospital of Philadelphia (CHOP).
Name: Miguel Brown
Type: User
Company: @d3b-center @kids-first
Bio: Bioinformatics Engineer, lead developer within BIXU team at the Center for Data Driven Discovery (D3b) at the Children's Hospital of Philadelphia (CHOP).
DNAseq alignment pipelines for use on HPC systems.
Will evolve to the new alignment pipeline to be run on cloud instead of cluster
A dev version of somatic calling pipe used by cbttc for wgs and pnoc
Website for bioconductor.org
Somewhat specialized python scripts to create unsupervised hierarchical clustering heat maps
using all the bits for echt rapid variant annotation and filtering
django site to serve seqConfig
Collection of notebooks, mostly useful only to me
Sentieon workflow for Kids-First
Filter mouse reads from a Human PDX derived .bam
A cwl workflow to run ngs_checkmate on large datasets
The manuscript repository for the Open Pediatric Brain Tumor Atlas Project
The analysis repository for the Open Pediatric Cancer Project
Repo with project-specific scripts. Not likely useful to general public
RNAseq pipeline
scRNA-seq pipeline using Salmon for quantification
Sequencing configuration generator
Plugin to upload variant reports into variant viewer
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