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FAQ: Input for iHMMune-alignWhat is the format for input sequencesSequences submitted to iHMMune-align should be in FASTA format. Why would I want to use a custom repertoire file?Changing the repertoire allows you to customise the germline genes that are used for partitioning. This is useful if you have a germline gene that isn't in the current repertoire or if you wish to limit the germline genes that are considered. How do I make a custom repertoire file?A custom repertoire simply consists of a set of sequences in FASTA format. They must include IGHV/IGHD/IGHJ in the description line. Each of the germline genes has it's own file, so all germline IGHV are in a single file, IGHD in another and IGHJ in another. You can use your custom repertoire by specifying the location of the file on the iHMMune-align submission form in the repertoire section. If you choose to use a custom repertoire it is immeadiately removed from the server once the partitioning process is complete. |
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