# Home

You're here because you have linked-read data and might want to convert it between different linked-read formats. Many of the conversions available in Djinn work for either FASTQ or BAM files. Djinn also includes other tools for e.g. extracting barcodes from linked-read data, sorting by barcodes, etc. Nifty convenience things.

# Convert files

Djinn converts between linked-read data formats. It supports:

• 10X
• haplotagging
• stLFR
• TELLseq
• standard

You can convert between these formats in terms of FASTQ type or barcode style.

# NCBI submission

NCBI strips out sequence headers from FASTQ submissions, so it would be best to convert your linked-read FASTQ data into an unaligned BAM file, with the linked-read barcode stored in the BX or BC tag. Djinn provides a convenience function to convert to (or from) this format, although we make no effort to hide the fact it's just one-liner samtools commands.