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deeplearning

playing with deep learning in R

di2a

Python and R code for peptide identification and quantification from direct infusion data-independent acquisition mass spectrometry data.

diaumpire_wiff2signalextraction

python stuff automating the processing going from .wiff file through the signal extraction module

drug-class

comparing drug classification methods

est

fastai-v3

Starter app for fastai v3 model deployment on Render

icml18-jtnn

leafcutter

Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae Kyung Im, Jonathan K. Pritchard

lincs-general

start working with LINCS transcriptomic data

msgfgui

A gui overlay and extension for MSGFplus

msgfplus

An MSGF+ interface for R

msstats-feature-selection

new

for

parser

parseR: Pipeline for rna-seq analysis in R

pepsum

a package in [R] for MS-based proteomics data quality control and summary. So far, the package uses two main classes, "proteome" and "pepsum" for containing and working on the proteome sequences and the database search output, respectively. Most of the functions for class pepsum objects are focused on summarizing output from either MS-GFDB or Protein Prospector, but some flexibility exists and eventually I hope the code will be more flexible.

piqedia

PTM Identification and Quantification Engine from DIA

positional-shap

proteomedigestsim

A collection of R classes to allow prediction of proteome coverage based on digestion, specifically iterative digestion by MED-FASP

proteomics

useful functions for analysis of proteomic data

proteomics-tutorial

pycryptsy

Python binding to the Cryptsy API

runme2

test

steem

The blockchain for Smart Media Tokens (SMTs) and decentralized applications.

stoichcalc

stoichiolyzer

sumo-remnant

Collection of files and R scripts analysis of SUMO-remnant MS data

vangan

wgangp