compute_isoform_switches: Compute isoform switches
In hclimente/sword: Switch Catcher, Uprooting Differentially-expressed Ones
Description
Top-level function to find isoform switches from transcript- and
gene-level expression files.
Usage
1
2
compute_isoform_switches(ctrlExpressionFile, caseExpressionFile, tx2geneFile,
outfile, minTpm = 0.1, minSamples = 10, ...)
Arguments
ctrlExpressionFile
Tab-separated table with normalized
transcript-level expression for the control samples, in log2(TPM + 0.001).
caseExpressionFile
Tab-separated table with normalized
transcript-level expression for the case samples, in log2(TPM + 0.001).
tx2geneFile
Tab-separated table with the assignation of transcripts
to genes (one per line).
outfile
Output file.
...
arguments passed to the find_switches function.
hclimente/sword documentation built on May 25, 2019, 5:26 p.m.
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Description
Top-level function to find isoform switches from transcript- and gene-level expression files.
Usage
1 2 | compute_isoform_switches(ctrlExpressionFile, caseExpressionFile, tx2geneFile,
outfile, minTpm = 0.1, minSamples = 10, ...)
|
Arguments
ctrlExpressionFile |
Tab-separated table with normalized transcript-level expression for the control samples, in log2(TPM + 0.001). |
caseExpressionFile |
Tab-separated table with normalized transcript-level expression for the case samples, in log2(TPM + 0.001). |
tx2geneFile |
Tab-separated table with the assignation of transcripts to genes (one per line). |
outfile |
Output file. |
... |
arguments passed to the |
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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