Paket: mosdepth (0.3.1+ds-2)

[ Källkod: mosdepth  ]

BAM/CRAM depth calculation biological sequencing

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.

Andra paket besläktade med mosdepth

• dep: libc6 (>= 2.1.3) [i386]

  GNU C-bibliotek: Delade bibliotek
  också ett virtuellt paket som tillhandahålls av libc6-udeb

  dep: libc6 (>= 2.14) [amd64]

  dep: libc6 (>= 2.17) [arm64, ppc64el]

  dep: libc6 (>= 2.2) [mips64el, mipsel]

  dep: libc6 (>= 2.4) [armel, armhf]

Hämta mosdepth

Hämtningar för alla tillgängliga arkitekturer

Arkitektur	Paketstorlek	Installerad storlek	Filer
amd64	152,5 kbyte	564,0 kbyte	[filförteckning]
arm64	140,7 kbyte	544,0 kbyte	[filförteckning]
armel	131,7 kbyte	488,0 kbyte	[filförteckning]
armhf	134,6 kbyte	388,0 kbyte	[filförteckning]
i386	164,7 kbyte	583,0 kbyte	[filförteckning]
mips64el	143,9 kbyte	635,0 kbyte	[filförteckning]
mipsel	145,8 kbyte	584,0 kbyte	[filförteckning]
ppc64el	166,6 kbyte	724,0 kbyte	[filförteckning]