R: mlgt: Multi-locus geno-typing

mlgt-package {mlgt} | R Documentation

## mlgt: Multi-locus geno-typing

### Description

Package: | mlgt
Type: | Package
Version: | 0.16
Date: | 2012-03-27
Author: | Dave T. Gerrard <david.gerrard@manchester.ac.uk>
License: | GPL (>= 2)
LazyLoad: | yes

### Details

mlgt sorts a batch of sequence by barcode and identity to templates. It makes use of external applications BLAST and MUSCLE. Genotypes are called and alleles can be compared to a reference list of sequences. More information about each function can be found in its help documentation.

Some text

The main functions are: `prepareMlgtRun`, `mlgt`, `callGenotypes`, `createKnownAlleleList`,

...

### References

BLAST - Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman (1990). Basic local alignment search tool. Journal of molecular biology 215 (3), 403-410.

MUSCLE - Robert C. Edgar (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 32(5), 1792-97.

IMGT/HLA database - Robinson J, Mistry K, McWilliam H, Lopez R, Parham P, Marsh SGE (2011) The IMGT/HLA Database. Nucleic Acids Research 39 Suppl 1:D1171-6

[Package mlgt version 0.16 Index]