FIRMA pipeline

FIRMA specifications

Information


Unique identifier OMICS_07623
Name FIRMA
Alternative name Finding Isoforms using Robust Multichip Analysis
Software type Package/Module
Interface Command line interface
Restrictions to use None
Biological technology Affymetrix
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Elizabeth Purdom <>

Publication for Finding Isoforms using Robust Multichip Analysis

FIRMA citations

 (2)
2014
PMCID: 4137096

[…] ≤ −1.0, indicating half as much as the average sample, are used as a thresholds for characterizing samples with tin (tin-samples). in comparisons across datasets, alternative splicing analyses by the firma algorithm, and calculation of sample-wise tin-estimates, were done across all the samples included in each comparison, as indicated., statistical analyses were conducted in the r software enviro […]

2009
PMCID: 2636774

[…] available from the affymetrix website. html results files with links to expression plots, x:map, netaffx and ncbi were created in r., apt: affymetrix power tools; firma: finding isoforms using robust multichip, average; limma: linear models for microarray analysis; plier: probe, logarithmic intensity error; rma: robust multi average, ss developed the workflow, […]

FIRMA institution(s)
Department of Statistics, University of California at Berkeley, Berkeley, CA, USA

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