Test data for mosdepth


Many small reads are produced by high-throughput "next generation" sequencing technologies. The final sequence is derived from how these reads are overlapping towards a consensus. The more reads are covering/confirming parts of a nucleotide seq, the higher the confidence is. Too many reads would be indicative of e.g. repeats in the genome.

mosdepth can output:
 * per-base depth about 2x as fast samtools depth--about 25 minutes
    of CPU time for a 30X genome.
 * mean per-window depth given a window size--as would be used for
    CNV calling.
 * the mean per-region given a BED file of regions.
 * a distribution of proportion of bases covered at or above a given
    threshold for each chromosome and genome-wide.
 * quantized output that merges adjacent bases as long as they fall
    in the same coverage bins e.g. (10-20)
 * threshold output to indicate how many bases in each region are
    covered at the given thresholds.
when appropriate, the output files are bgzipped and indexed for ease of use.

This package contains a test data set as well as sample scripts running some test suite provided by Debian also as autopkgtest.

Upload more screenshots

Please help extend the collection of screenshots. Just make a screenshot and upload it here. You don't need to register or anything.

Upload a screenshot

Hint: upload an image here from your clipboard with Ctrl-V


Install this software package

If the package is available for the distribution you are currently using on your computer then install the software by clicking on…

Install mosdepth-examples