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anki_scripts

biograpy

Biological Graphic tool in Python

cinc2016

PhysioNet Challenge 2016

circfull

a tool to detect and quantify full-length circRNA isoforms from circFL-seq

circstamp_pipe

clipnet

Identify co-functioning RBPs

co-inheritance

Play with peri-odontal disease metagenome; Aim at a functional perspective

cse291spr21

datascience

jupyter notebook for data science research

deep-exrna

CSE283 course project: classify cancer recurrence using exRNA

deeprecipe

f-shape-eclip

Generate fSHAPE/SHAPE reactivity profiles from (f)SHAPE-eCLIP reads.

fmrp_tutorial

FMRP tutorial for Jenn/Yu Liang

ipafinder

Systematic analyses of intronic polyadenylation from standard RNAseq data

kir_development

Development of KIR CN tool

machine_learning

Some example machine learning algorithm implementations from Berkeley's CS 281A during Fall 2012.

make_track

Making eCLIP coverage, CITS, CIMS tracks

mammaliansecretoryrecon

Secretory Pathway Reconstruction for Human, CHO, and Mouse

merge_peaks

Pipeline for using IDR to produce a set of peaks given two replicate eCLIP peaks

metadensity

Define metadensity to predict RNA binding protein function

mtx

mudskipper_analysis

Analysis for tool Mudskipper, built to analyze multiplex CLIP

oligoclip

pipeline for oligoCLIP

oligoclip_analysis

notebooks for oligoCLIP analysis

ontoencoder

Autoencoder based on Biological Ontology to embed single cell data

ontoprune

To prune low information terms in Gene Ontology

pangenomeexp

pangenomics view of resistance on E.coli

porechop

adapter trimmer for Oxford Nanopore reads