|Author:||Dave T. Gerrard <[email protected]>|
|License:||GPL (>= 2)|
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.
The main functions are:
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
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