beigelk Goto Github PK
Name: Katherine Beigel
Type: User
Company: Department of Biomedical and Health Informatics at Children's Hospital of Philadelphia
Bio: Bioinformatics Scientist
Katherine Beigel's Projects
bulkrnaseq_deseq2
Generalized script for DESeq2 analysis of gene counts matrix from nf-core/rnaseq pipeline
code_snippets
Repo for small bits of functional code. Mostly for personal reference or for things I need to use frequently/don't want to forget.
doubletfinder
R package for detecting doublets in single-cell RNA sequencing data
figures_in_r
Code chunks for generating different figures in R.
microscopy
Repo for code related to handling microscopy imaging files (CZI, OME-TIFF)
nebulosa
R package to visualize gene expression data based on weighted kernel density estimation
rna_velocity_basic
Basic RNA velocity analysis using velocyto (spliced/unspliced counts), Seurat (to get UMAP coords and other metadata), and scVelo (RNA velocity analysis and figures)
scproportiontest
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