[ ソース: mosdepth ]
パッケージ: mosdepth-examples (0.3.3+ds-2)
mosdepth-examples に関するリンク
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mosdepth ソースパッケージをダウンロード:
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外部の資源:
- ホームページ [github.com]
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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.