mosdepth 0.3.6+ds-1 (riscv64 binary) in ubuntu noble
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.
Details
- Package version:
- 0.3.6+ds-1
- Status:
- Published
- Component:
- universe
- Priority:
- Optional
Downloadable files
- mosdepth_0.3.6+ds-1_riscv64.deb (184.4 KiB)
Package relationships
- Depends on: