CLUMPP @ BioHPC

CLUMPP is a program by Mattias Jakobsson and Noah A. Rosenberg that deals with label switching and multimodality problems in population-genetic cluster analyses. CLUMPP permutes the clusters output by independent runs of clustering programs such as STRUCTURE, so that they match up as closely as possible. The user has the option of choosing one of three algorithms for aligning replicates, with a tradeoff of speed and similarity to the optimal alignment. A program note describing CLUMPP was published in Bioinformatics 23: 1801-1806 (2007). For detailed information about the program please visit CLUMPP home page.

To submit a CLUMPP job, you will need to prepare and upload the paramfile containing program options and control parameters (see here for a template) and the file indfile or popfile containing the input ancestry information. Depending on the paramfile, you may also need another file referred to as permutationfile. Please make sure that the name(s) of the input file(s) you upload are the same as specified in paramfile and that values for all required parameters are specified. Upon job's completion, the output will be available for download as a zipped archive.

For complete information about the program options and input/output file formats please refer to CLUMPP manual.

Calculations will be carried out on the BioHPC compute cluster at CBSU. You will receive e-mail notifications when the job is submitted, when it starts, and when it is finished. Output will be available via links embedded in the notification e-mails. For more information about this program and BioHPC interface in general, please visit our Frequently Asked Questions page.

E-mail: (only guests need to use this field, registered users should log in)

Job name: (please, no spaces, special characters etc., uderscore is OK)

paramfile:

indfile or popfile:

permutationfile (optional):

WARNING: No format or consistency checks of your input files will be carried out at submission.

Cluster: ( Show timeout info )