BlastN: Takes a database genome and a query genome and blasts the...
In johnathanlo/chromPaintR: In-Silico Chromosome Painting
Description
Usage
Arguments
Details
Value
Author(s)
Description
Takes a query genome and a BLAST database and tries to find hits for the query genome by slicing it up by a user defined quantity.
Usage
1
BlastN(query, db, slicesize=100, leaps=900)
Arguments
query
Path to the query genome file
db
Path to the database genome file (must already have been turned into a BLAST database via MakeDB)
slicesize
Length of each nucleotide sequence to BLAST against the database
leaps
Number of nucleotides to skip between each BLAST query
Details
Scans through the query genome, reading in a nucleotide sequence of length slicesize, then stores that sequence in an output file. Skips leaps number of nucleotides and then repeats until the end of the query genome is reached. The output file containing all the nucleotide sequences is then queried all at the same time against the database.
Value
Returns a number of data files (text files). These should not be altered by the user.
Author(s)
Johnathan Lo and Heath Blackmon
johnathanlo/chromPaintR documentation built on July 2, 2020, 7:29 p.m.
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Description Usage Arguments Details Value Author(s)
Description
Takes a query genome and a BLAST database and tries to find hits for the query genome by slicing it up by a user defined quantity.
Usage
1 | BlastN(query, db, slicesize=100, leaps=900)
|
Arguments
query |
Path to the query genome file |
db |
Path to the database genome file (must already have been turned into a BLAST database via MakeDB) |
slicesize |
Length of each nucleotide sequence to BLAST against the database |
leaps |
Number of nucleotides to skip between each BLAST query |
Details
Scans through the query genome, reading in a nucleotide sequence of length slicesize, then stores that sequence in an output file. Skips leaps number of nucleotides and then repeats until the end of the query genome is reached. The output file containing all the nucleotide sequences is then queried all at the same time against the database.
Value
Returns a number of data files (text files). These should not be altered by the user.
Author(s)
Johnathan Lo and Heath Blackmon
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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