find_blocks: Find Synteny Blocks
In grafab/gsrc: Genome Structure Rearrangement Calling in Genomes with High Synteny
Description
Creates synteny blocks from homeolog positions.
See the vignette for more information.
Usage
1
2
find_blocks(df, eps = 2000000L, minPts = 100L, minLength = 1000000L,
maxLength = 10000000L, gap = 0L)
Arguments
df
Data frame with positions.
eps
Numeric, eps parameter for dbscan
minPts
Integer, minPTS parameter for dbscan.
minLength
Integer, minimal block length.
Blocks below this threshold will be filtered out.
maxLength
Integer, maximal block length.
Blocks above this threshold will be split up.
gap
Numeric, gap size between chromosomes.
grafab/gsrc documentation built on May 17, 2019, 8:18 a.m.
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Description
Creates synteny blocks from homeolog positions. See the vignette for more information.
Usage
1 2 | find_blocks(df, eps = 2000000L, minPts = 100L, minLength = 1000000L,
maxLength = 10000000L, gap = 0L)
|
Arguments
df |
Data frame with positions. |
eps |
Numeric, eps parameter for dbscan |
minPts |
Integer, minPTS parameter for dbscan. |
minLength |
Integer, minimal block length. Blocks below this threshold will be filtered out. |
maxLength |
Integer, maximal block length. Blocks above this threshold will be split up. |
gap |
Numeric, gap size between chromosomes. |
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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