Version 0.3 of SeqFeatR now available from CRAN.
The web-server uses version 0.3
SeqFeatR provides user friendly methods for the identification of sequence patterns that are statistically significantly associated with features of the sequence.
For instance, given host HLA types (= features), SeqFeatR allows to identify viral immune escape mutations (= patterns).
Budeus B, Timm J, Hoffmann D (2016) SeqFeatR for the Discovery of Feature-Sequence Associations. PLoS ONE 11(1): e0146409.
How to use the tool:
Sequence alignment to analyse (FASTA):*
Download example input
Known epitopes (CSV):
Reference sequence (FASTA):
Known binding motifs (CSV):
Position of feature HLA-A:*
Position of feature HLA-B:*
Height of horizontal line:
Height of star level:
Fisher's exact test
Fixed Dirichlet precision parameter?
Dirichlet precision parameter:
Minimal number of members:
Check for phylogenetic bias?
Show 'possible epitopes plot' (pdf)?
Comment line for report sheet (max. 200 characters):