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fgsea_plotupdown

A modified version of plotEnrichment() from FGSEA. This version takes in two pathways instead of one: an UP and a DOWN -regulated pathway. Both are plotted on the same enrichment plot.

genelowercase

A script to convert every gene name to capitalized first letter, every other letter lowercase. This is to convert a gene set for GSEA. https://www.gsea-msigdb.org/gsea/index.jsp March 2021 - Ian Dryg

good-neighbors

Identify neighborhoods based on local cell populations.

iandryg

Resume / Portfolio for Ian Dryg

ome_convert_deid

Convert from qptiff (and scn?) to ome tiff and remove some metadata.

pixeldistance

Using multi-channel microscopy images, calculates the minimum distance between two markers. In this case, it was used to calculate how invasive tumor cells were in lymph nodes by measuring the minimum distance between tumor-positive pixels and pixels positive for a lymphatic vessel marker (LYVE-1).

samplerbox

SamplerBox is a sampler musical instrument based on RaspberryPi.

scn2ometiff

scseqfxs

Some functions for streamlined single cell sequencing analysis.

vca

Vertex Component Analysis in Python