extractSeqsFromGff3: Extract Sequences from Gff3 file
In iferres/phylen: Search Core Genes Using HMMs, Compute Multiple Alignment, Concatenate And Compute Phylogeny
Description
Usage
Arguments
Value
Author(s)
Description
Extract Sequences from Gff3 file and outputs a list of element,
one per each CDS. Each element contain the DNA gene sequence and the AA
protein sequence.
Usage
1
2
extractSeqsFromGff3(infile, in.path = NULL, keep = "aa",
write.in.path = "dna")
Arguments
infile
character. The gff3 filename.
in.path
Where the output (fasta files) will be written.
keep
character. What to keep in memory. One of "aa", "dna",
"both" or "none".
write.in.path
character. What to write in.path. One of
"aa", "dna", "both" or "none".
Value
A list with CDS gene and/or protein sequences, if specifyied.
Author(s)
Gregorio Iraola and Ignacio Ferres.
iferres/phylen documentation built on May 24, 2019, 2:04 a.m.
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Description Usage Arguments Value Author(s)
Description
Extract Sequences from Gff3 file and outputs a list of element, one per each CDS. Each element contain the DNA gene sequence and the AA protein sequence.
Usage
1 2 | extractSeqsFromGff3(infile, in.path = NULL, keep = "aa",
write.in.path = "dna")
|
Arguments
infile |
|
in.path |
Where the output (fasta files) will be written. |
keep |
|
write.in.path |
|
Value
A list with CDS gene and/or protein sequences, if specifyied.
Author(s)
Gregorio Iraola and Ignacio Ferres.
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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