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:Â 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.
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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
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