全部搜尋項
squeeze  ] [  wheezy  ] [  jessie  ] [  sid  ]
[ 原始碼: sim4  ]

套件: sim4 (0.0.20030921-3)

sim4 的相關超連結

Screenshot

Debian 的資源:

下載原始碼套件 sim4

維護小組:

外部的資源:

相似套件:

tool for aligning cDNA and genomic DNA

sim4 is a similarity-based tool for aligning an expressed DNA sequence (EST, cDNA, mRNA) with a genomic sequence for the gene. It also detects end matches when the two input sequences overlap at one end (i.e., the start of one sequence overlaps the end of the other).

sim4 employs a blast-based technique to first determine the basic matching blocks representing the "exon cores". In this first stage, it detects all possible exact matches of W-mers (i.e., DNA words of size W) between the two sequences and extends them to maximal scoring gap-free segments. In the second stage, the exon cores are extended into the adjacent as-yet-unmatched fragments using greedy alignment algorithms, and heuristics are used to favor configurations that conform to the splice-site recognition signals (GT-AG, CT-AC). If necessary, the process is repeated with less stringent parameters on the unmatched fragments.

標籤: 領域: 生物學, 生物資訊學, 實做語言: implemented-in::c, interface::commandline, 角色: 程式, 範圍: 實用程式, Purpose: use::comparing, use::searching, 支援的格式: 需要一個額外的標籤, works-with-format::plaintext, works-with::TODO

其他與 sim4 有關的套件

  • 依賴
  • 推薦
  • 建議
  • enhances

下載 sim4

下載可用於所有硬體架構的
硬體架構 套件大小 安裝後大小 檔案
amd64 53.4 kB144.0 kB [文件列表]
armel 52.8 kB140.0 kB [文件列表]
armhf 46.1 kB100.0 kB [文件列表]
i386 48.8 kB132.0 kB [文件列表]
ia64 75.8 kB220.0 kB [文件列表]
kfreebsd-amd64 54.1 kB122.0 kB [文件列表]
kfreebsd-i386 49.1 kB110.0 kB [文件列表]
mips 55.2 kB160.0 kB [文件列表]
mipsel 55.9 kB164.0 kB [文件列表]
powerpc 53.5 kB144.0 kB [文件列表]
s390 51.4 kB140.0 kB [文件列表]
s390x 57.6 kB145.0 kB [文件列表]
sparc 49.2 kB136.0 kB [文件列表]