Pakiet: sickle (1.33+git20150314.f3d6ae3-1)
Odnośniki dla sickle
Zasoby systemu Debian:
- Raporty o błędach
- Developer Information
- Dziennik zmian w systemie Debian
- Informacje nt. praw autorskich
- Śledzenie łatek systemu Debian
Pobieranie pakietu źródłowego sickle:
- [sickle_1.33+git20150314.f3d6ae3-1.dsc]
- [sickle_1.33+git20150314.f3d6ae3.orig.tar.xz]
- [sickle_1.33+git20150314.f3d6ae3-1.debian.tar.xz]
Opiekunowie:
- Debian Med Packaging Team (Strona QA, Archiwum e-mail)
- Andreas Tille (Strona QA)
- Tim Booth (Strona QA)
Zasoby zewnętrzne:
- Strona internetowa [github.com]
Podobne pakiety:
windowed adaptive trimming tool for FASTQ files using quality
Most modern sequencing technologies produce reads that have deteriorating quality towards the 3'-end. Incorrectly called bases here negatively impact assembles, mapping, and downstream bioinformatics analyses.
Sickle is a tool that uses sliding windows along with quality and length thresholds to determine when quality is sufficiently low to trim the 3'-end of reads. It will also discard reads based upon the length threshold. It takes the quality values and slides a window across them whose length is 0.1 times the length of the read. If this length is less than 1, then the window is set to be equal to the length of the read. Otherwise, the window slides along the quality values until the average quality in the window drops below the threshold. At that point the algorithm determines where in the window the drop occurs and cuts both the read and quality strings there. However, if the cut point is less than the minimum length threshold, then the read is discarded entirely.
Sickle supports four types of quality values: Illumina, Solexa, Phred, and Sanger. Note that the Solexa quality setting is an approximation (the actual conversion is a non-linear transformation). The end approximation is close.
Sickle also supports gzipped file inputs.
Inne pakiety związane z sickle
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- dep: libc6 (>= 2.4)
- Biblioteka GNU C: biblioteki współdzielone
również pakiet wirtualny udostępniany przez libc6-udeb
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- dep: zlib1g (>= 1:1.1.4)
- Biblioteka kompresyjna - pliki wykonawcze
Pobieranie sickle
Architektura | Rozmiar pakietu | Rozmiar po instalacji | Pliki |
---|---|---|---|
i386 | 18,8 KiB | 55,0 KiB | [lista plików] |