FDM protocols

FDM specifications

Information


Unique identifier OMICS_01332
Name FDM
Alternative name flow difference metric
Software type Application/Script, Package/Module
Interface Command line interface
Restrictions to use None
Input format SAM+GTF
Operating system Unix/Linux
Computer skills Advanced
Stability No
Maintained No

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Publication for flow difference metric

FDM IN pipelines

 (2)
2016
PMCID: 4728800
PMID: 26813401
DOI: 10.1186/s13059-016-0881-8

[…] by integrating the two steps, the uncertainty in the first step is taken into consideration when performing the statistical analysis to look for differential isoform expression [66]. the flow difference metric (fdm) uses aligned cumulative transcript graphs from mapped exon reads and junction reads to infer isoforms and the jensen-shannon divergence to measure the difference [67]. […]

2016
PMCID: 4728800
PMID: 26813401
DOI: 10.1186/s13059-016-0881-8

[…] the two steps, the uncertainty in the first step is taken into consideration when performing the statistical analysis to look for differential isoform expression [66]. the flow difference metric (fdm) uses aligned cumulative transcript graphs from mapped exon reads and junction reads to infer isoforms and the jensen-shannon divergence to measure the difference [67]. recently, shi and jiang […]

FDM institution(s)
Department of Computer Science, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA; Department of Computer Science, University of Kentucky, Lexington, KY, USA; Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA; Department of Statistics and Operations Research, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA; Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
FDM funding source(s)
Supported by National Science Foundation (ABI/EF grant number 0850237); National Institutes of Health: NCI TCGA (grant number CA143848); NCRR Idea (INBRE Grant P20RR016481); NCI GI SPORE Developmental Project Award (P50CA106991); Alfred P. Sloan Foundation fellowship.

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