sermare Goto Github PK

16srna-qiime2

atac-seq-pipeline

ENCODE ATAC-seq pipeline

be131

UC Berkeley 2018 Fall BIOENG 131 : Introduction to Computational Molecular and Cellular Biology

carp-encoding-a-ca2--regulated-putative-phytase

Here, we studied the conservation of carP sequence and its occurrence in diverse phylogenetic groups of bacteria. In silico analysis revealed that carP and its two paralogues PA2017 and PA0319 are primarily present in P. aeruginosa and belong to the core genome of the species.

deepoff

Deep Learning to predict phenotype score associated with heritable gene silencing induced by CRISPRoff

diffhash

Find regions of differential expression by looking at kmer counts.

fall-2021

https-sermare.github.io

map-pseudomonas-calc

Calcium leak channel (CalC) regulatory role in Pseudomonas aeruginosa virulence and interactions with the host.

megaprobe-lab

Sources for the MegaProbe lab web pages.

pseudomonas-database-species-counter

Using Pseudomonas.com (blastN or blastP) searches, this code will pull out the species found in the input csv file and make a count for each species, useful for graphics.

pydeseq2

A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.

sermare.github.io

personal website

ucsf_work