Overview

Contents:

Description

Minnn is a toolset to process genetic data from sequencing machines and assemble sequenced molecules from raw FASTQ data. Consensus assembly in minnn consists of the following stages:

  1. Extract barcodes from raw sequences.
  2. Sort sequences by barcode values to group them for further correction.
  3. Correct mismatches and indels in barcodes.
  4. Sort sequences by barcode values to group them for further consensus assembly.
  5. Assembly consensuses for each barcode. There can be one or many consensuses for each barcode, depending on the way of obtaining original data.
  6. Export calculated consensuses to FASTQ format.

Also minnn has some other functions:

  • Filter original data by barcode values.
  • Filter calculated consensuses by quantity of reads from which they were assembled.
  • Filter barcode values by their count.
  • Decontaminate: remove barcodes from one cell that appear in samples from another cell.
  • Split (demultiplex) data into separate files by barcode values.
  • Collect statistics from data by barcode values and by barcode positions in sequences.

Minnn is free for academic and non-profit use (see License).

Usage Chart

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