套件：sideretro（1.1.6-2）

[ 原始碼： sideretro  ]

pipeline for detecting Somatic Insertion of DE novo RETROcopies

sideRETRO is a bioinformatics tool designed for the detection of somatic retrocopy insertions, also known as retroCNVs, in whole genome sequencing (WGS) and whole exome sequencing (WES) data.

Retrocopies, also known as processed pseudogenes, are sequences derived from protein-coding genes, generated by the duplication of these genes through the transposition of their mature messenger RNA via the LINE-1 enzymatic machinery. Retrocopies can be fixed, meaning they are present in all genomes of a given species (including the species' reference genome), or unfixed (polymorphic, germline, or somatic), in which case they are referred to as retroCNVs. While fixed retrocopies have received considerable attention in the scientific community, knowledge of retroCNVs remains limited, largely due to the lack of specialized bioinformatics tools for their identification and annotation in DNA sequencing data.

sideRETRO is a dedicated computational algorithm that detects retrocopies absent from the reference genome but present in WGS and WES data from other individuals. In addition to identifying retroCNVs, sideRETRO annotates several characteristics associated with these events. It provides information on the genomic coordinates of the insertion, including chromosome, insertion point, and DNA strand. It also determines the genomic context of the event (exonic, intronic, or intergenic), performs genotyping (presence or absence), and provides haplotyping information (homozygous or heterozygous).

其他與 sideretro 有關的套件

• dep: libc6 (>= 2.38) [除 alpha, sh4]

  GNU C 函式庫：共用函式庫
  同時作為一個虛擬套件由這些套件填實： libc6-udeb

  dep: libc6 (>= 2.41) [sh4]

• dep: libc6.1 (>= 2.38) [alpha]

  GNU C 函式庫：共用函式庫
  同時作為一個虛擬套件由這些套件填實： libc6.1-udeb

• dep: libhts3t64 (>= 1.17)

  C library for high-throughput sequencing data formats

• dep: libsqlite3-0 (>= 3.7.10)

  SQLite 3 shared library

• dep: zlib1g (>= 1:1.2.6)

  壓縮函式庫 - 跑程式時用(runtime)

下載 sideretro

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
alpha （非官方移植版）	84。3 kB	246。0 kB	[檔案列表]
amd64	88。4 kB	232。0 kB	[檔案列表]
arm64	90。2 kB	245。0 kB	[檔案列表]
armel	80。8 kB	243。0 kB	[檔案列表]
armhf	79。4 kB	179。0 kB	[檔案列表]
i386	93。1 kB	247。0 kB	[檔案列表]
m68k （非官方移植版）	79。7 kB	211。0 kB	[檔案列表]
ppc64el	92。5 kB	309。0 kB	[檔案列表]
riscv64	96。6 kB	217。0 kB	[檔案列表]
sh4 （非官方移植版）	91。3 kB	243。0 kB	[檔案列表]
x32 （非官方移植版）	89。2 kB	223。0 kB	[檔案列表]