| Jemultiplexer accommodates complex multiplexing protocols like :
(1) when different barcodes are found in both reads (PE situation), (2) barcodes can include degenerate position (like in the iCLIP protocol), (3) when barcodes are composed of random sequence like in RNA-seq single-cell sequencing protocols i.e. to disentangle biological read duplicates that reflect RNA abundance in the cell from technical duplicates that result from sequencing the same RNA molecule multiple times (PCR duplicates). Jemultiplexer deals with barcodes found at the start of the reads, barcodes provided in separate file(s) e.g. Illumina index files, or a combination of these two situations. Options to tune sample barcode matching, to trim reads on-the-fly and to format generated read headers (and more) are also provided. An extensive documentation, with typical use case scenarios, is available at http://gbcs.embl.de/jemultiplexer/ , including directions on how to join the jemultiplexer user mailing list. |
hg clone https://toolshed.g2.bx.psu.edu/repos/gbcs-embl-heidelberg/jemultiplexer
| Name | Description | Version | Minimum Galaxy Version |
|---|---|---|---|
| Demultiplexes multiplexed data | 1.0.0 | any | |