TPM calculator 0.0.3

TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files.

Quick Start

To use TPM calculator 0.0.3, import a GTF file of reference gene annotations and one or more BAM files of mapped sequence data
Resources: https://github.com/ncbi/TPMCalculator

Test Data

Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> TPMCalulator

Input Files

Use:

reference.gtf
bam_files (folder)

Parameters

There are no required parameters.

Output Files

This analysis should generate three output files for each input:

sample1_genes.ent
sample1_genes.out
sample1_genes.uni
sample2_genes.ent
sample2_genes.out
sample2_genes.uni

Tool Source for App

https://github.com/ncbi/TPMCalculator