smith-chem-wisc Goto Github PK

appleturnover

Application for Elucidating Turnover Rates

bio.vcf

A CSharp Parser for VCF Files

btdr

Access BUPID Top-Down results in R

deconvolutionautoit

AutoIT code for devonvoluting intervals of intact protein MS data using Protein Deconvolution 2.0 on the Smith Lab's Velos search computer

flashlfq

Ultra-fast label-free quantification algorithm for mass-spectrometry proteomics

geneprotxml

Creating a gene-centric proteomics database for proteogenomic studies.

gptmd

Use open search results (from Morpheus) to create a database with uncovered candidate PTM annotations

hackybutfunctionalcodetomakelifeeasier

The name says it all. Made public by Lei's request. Use at your own risk.

jenkins-metamorpheus

Code used for continuous builds of MetaMorpheus

learning-csharp

A Course for Learning the C# Programming Language

lncrna-snakemake

The full LncRNA data analysis workflow from sample.fastq to IsoMat.txt

metadrive

metamorpheus

Proteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilities

metamorpheus-peptide-database-generator

Creates a .fasta database from MetaMorpheus PSM results

metanetwork

metapal

A framework for reading and writing ML-ready proteomics data

mzcal

OLD VERSION, USE METAMORPHEUS NOW

mzdeconvolution

OLD VERSION, USE MZLIB NOW

mzlib

Library for mass spectrometry projects

mzlib-rest

Library for mass spectrometry projects

neo

privateneo

OLD. SEE https://github.com/zrolfs/MetaMorpheus/tree/Neo-Fusion for current code. Downstream analysis for MetaMorpheus to identify novel spliced peptides

proteaseguru

proteoformclassifier

Classifies proteoform identifications and validates that input is transparent about ambiguity

proteoformexplorer

Proteoform Dashboard

proteoformnomenclature

proteoformsuite

Construction, quantification, and visualization of proteoform families

proteoformsuitevignettes

Vignettes for Proteoform Suite

proteogenomics

C# implementation of classes and functions for proteogenomics

psi-mod-cv

Reactivated PSI-MOD ontology for molecular mass modifications