processClusters: Processes CD-HIT result file
In timjeske/DEUS: Differential expression of unique sequences
Description
Usage
Arguments
Value
Description
This function is internally called by runClustering
Usage
1
processClusters(map, clusters, out_dir, write_fastas)
Arguments
map
A data frame with sequences as row names and sequence identifiers in first column.
Can be generated by createMap
clusters
The path to CD-HIT.fa
out_dir
Directory of CD-HIT result file and where generated files will be saved
write_fastas
Boolean that indicates whether a fasta file will be generated for each cluster
Value
A data frame with the columns 'qseqid', 'cl_id' and 'sequences' containing the sequence identifier, the sequence and the assigned cluster identifier.
timjeske/DEUS documentation built on June 6, 2019, 12:59 p.m.
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Description Usage Arguments Value
Description
This function is internally called by runClustering
Usage
1 | processClusters(map, clusters, out_dir, write_fastas)
|
Arguments
map |
A data frame with sequences as row names and sequence identifiers in first column. Can be generated by createMap |
clusters |
The path to CD-HIT.fa |
out_dir |
Directory of CD-HIT result file and where generated files will be saved |
write_fastas |
Boolean that indicates whether a fasta file will be generated for each cluster |
Value
A data frame with the columns 'qseqid', 'cl_id' and 'sequences' containing the sequence identifier, the sequence and the assigned cluster identifier.
R Package Documentation
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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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