run_mcscanx: run_mcscanx
In jtlovell/GENESPACE: Synteny- and orthology-constrained comparative genomics
run_mcscanx R Documentation
run_mcscanx
Description
run_mcscanx run_mcscanx
Usage
run_mcscanx(hits, blkSize, nGaps, tmpDir, MCScanX_hCall)
Arguments
hits
an annotated blast hits data.table.
blkSize
integer of length 1, specifying the -s param to MCScanX_h
nGaps
integer of length 1, specifying the -m param to MCScanX_h
tmpDir
file.path to the temporary directory where MCScanX_h should
be run.
MCScanX_hCall
file.path pointing to the MCScanX_h executable
Details
runs MCScanX_h
Value
a named vector of collinear block IDs, labeled as 'geneID1 geneID2'.
Examples
## Not run:
# coming soon.
## End(Not run)
jtlovell/GENESPACE documentation built on Jan. 25, 2025, 6:39 a.m.
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| run_mcscanx | R Documentation |
run_mcscanx
Description
run_mcscanx run_mcscanx
Usage
run_mcscanx(hits, blkSize, nGaps, tmpDir, MCScanX_hCall)
Arguments
hits |
an annotated blast hits data.table. |
blkSize |
integer of length 1, specifying the -s param to MCScanX_h |
nGaps |
integer of length 1, specifying the -m param to MCScanX_h |
tmpDir |
file.path to the temporary directory where MCScanX_h should be run. |
MCScanX_hCall |
file.path pointing to the MCScanX_h executable |
Details
runs MCScanX_h
Value
a named vector of collinear block IDs, labeled as 'geneID1 geneID2'.
Examples
## Not run:
# coming soon.
## End(Not run)
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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