套件：minia（3.2.6-4 以及其他的） [debports]
short-read biological sequence assembler
What was referred to as "next-generation" DNA sequencing up to the year 2020 delivered only "short" reads up to ~600 base pairs in length that would then have to be puzzled by random overlaps in their sequence towards a complete genome. This is the genome assembly. And there are many biological pitfalls on long stretches of low complexity regions and copy number variations and other sorts of redundancies that render this difficult.
This package provides a short-read DNA sequence assembler based on a de Bruijn graph, capable of assembling a human genome on a desktop computer in a day.
The output of Minia is a set of contigs, i.e. stretches of gap-free linear overlaps of short reads. In the best possible case this is a whole chromosome.
Minia produces results of similar contiguity and accuracy to other de Bruijn assemblers (e.g. Velvet).
其他與 minia 有關的套件
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- dep: bc
- GNU bc arbitrary precision calculator language
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- dep: libc6.1 (>= 2.34)
- 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
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- dep: libgatbcore3 (>= 1.4.2+dfsg)
- dynamic library of the Genome Analysis Toolbox
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- dep: libgcc-s1 (>= 3.0)
- GCC 支援函式庫
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- dep: libhdf5-103-1t64
- HDF5 C runtime files - serial version
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- dep: libstdc++6 (>= 13.1)
- GNU Standard C++ Library v3
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- dep: zlib1g
- 壓縮函式庫 - 跑程式時用(runtime)
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- rec: samtools
- processing sequence alignments in SAM, BAM and CRAM formats
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- sug: bandage
- Bioinformatics Application for Navigating De novo Assembly Graphs Easily