Name: Nathan Salomonis
Type: User
Company: Cincinnati Children's Hospital and Medical Research Center
Bio: Our laboratory works to develop computational genomics methods for to understand cellular heterogeneity at the level of gene expression and splicing.
Location: Cincinnati, Ohio
Blog: https://www.cincinnatichildrens.org/bio/s/nathan-salomonis
Nathan Salomonis's Projects
AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.
List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.
Uses SAMTools, Python 2.7 and PySam to extract either junctions or exon read counts for known and novel junctions and exons. Requires an indexed BAM file with genomic coordinates
An Immunophenotypic and Transcriptomic Human Bone Marrow Atlas
Modification of kallisto 0.43.1 for identifying splice junctions
Sample Classification and Model Evaluation in LineageProfiler
Table of software for the analysis of single-cell RNA-seq data.
Splicing Neo Antigen Finder (SNAF) is an easy-to-use Python package to identify splicing-derived tumor neoantigens from RNA sequencing data, it further leverages both deep learning and hierarchical Bayesian models to prioritize certain candidates for experimental validation