パッケージ: stringtie (2.2.1+ds-3 など) [debports]
assemble short RNAseq reads to transcripts
The abundance of transcripts in a human tissue sample can be determined by RNA sequencing. The exact sequence sampled may be random, depending on the technology used. And it may be short, i.e. shorter than the transcript. At some point, many shorter reads need to be assembled to the model the complete transcripts.
StringTie knows how to assemble of RNA-Seq into potential transcripts without the need of a reference genome and provides a quantification also of the splice variants.
その他の stringtie 関連パッケージ
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- dep: libc6 (>= 2.34)
- GNU C ライブラリ: 共有ライブラリ
以下のパッケージによって提供される仮想パッケージでもあります: libc6-udeb
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- dep: libgcc-s1 (>= 3.4)
- GCC 共有ライブラリ
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- dep: libhts3t64 (>= 1.17)
- C library for high-throughput sequencing data formats
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- dep: libstdc++6 (>= 4.1.1)
- GNU 標準 C++ ライブラリ v3
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- dep: python3
- interactive high-level object-oriented language (default python3 version)
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- rec: stringtie-examples
- パッケージは利用できません
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- sug: cufflinks
- Transcript assembly, differential expression and regulation for RNA-Seq