rfPred_scores_motor

Variants list in a <code>data.frame</code>
  containing 4 or 5 columns: chromosome number, hg19
  genomic position on the chromosome, reference nucleotid,
  variant nucleotid and uniprot protein identifier
  (optional)

variant_list

Path to the compressed TabixFile, either on
  the server (default) or on the user's computer

data

Path to the index of the TabixFile, either
  on the server (default) or on the user's computer

index

<code>TRUE</code> to return all available
  information, <code>FALSE</code> to return a more compact result
  (the most informative columns, see Value)

all.col

Optional, name of the CSV file in
  which export the results (default is <code>NULL</code>)

file.export

number of cores to use when scaning the
  TabixFile, can be efficient for large request (default is
  1)

n.cores

Based on external numerous data files where rfPred scores
are pre-calculated on all genomic positions of the human exome,
the package gives rfPred scores to missense variants identified
by the chromosome, the position (hg19 version), the referent
and alternative nucleotids and the uniprot identifier of the
protein. Note that for using the package, the user has to be
connected on the Internet or to download the TabixFile and
index (approximately 3.3 Go).

Hugo Varet

rfPred

Assign rfPred functional prediction scores to a missense
variants list

rfPred_scores_motor function

Variants list in a <code>data.frame</code>
  containing 4 or 5 columns: chromosome number, hg19
  genomic position on the chromosome, reference nucleotid,
  variant nucleotid and uniprot protein identifier
  (optional)

Path to the compressed TabixFile, either on
  the server (default) or on the user's computer

Path to the index of the TabixFile, either
  on the server (default) or on the user's computer

<code>TRUE</code> to return all available
  information, <code>FALSE</code> to return a more compact result
  (the most informative columns, see Value)

Optional, name of the CSV file in
  which export the results (default is <code>NULL</code>)

number of cores to use when scaning the
  TabixFile, can be efficient for large request (default is
  1)

rfPred_scores_motor: Motor of `rfPred_scores`

Description

Usage

Arguments

Value