|
详情:https://ccb.jhu.edu/software/kraken2/index.shtml?t=manual
--output
共5列
1."C"/"U":是否分类(C:分类;U:未分类)
2.测序数据read ID号 ,来自FASTA/FASTQ文件
3.分类ID号,(例:Mucilaginibacter ginsenosidivorax (taxid 862126);如果taxid号为0,说明没有分类)
4.测序read的长度
5.以空格分隔的列表,指示序列中每个k-mer的LCA映射 (冒号之前taxid,0为没有数据)
例:"562:13 561:4 A:31 0:1 562:3"
the first 13 k-mers mapped to taxonomy ID #562
the next 31 k-mers contained an ambiguous nucleotide
the next 1 k-mer was not in the database
备注:最近公共祖先 lowest common ancestor (LCA)
--report
共6列
1.Percentage of fragments covered by the clade rooted at this taxon(这个属或种的read在总read的比例)
2.Number of fragments covered by the clade rooted at this taxon(统计分类子集数量即该分类单元的read数,
)<比如属,会包括这个属之下的所有种>)
3.Number of fragments assigned directly to this taxon (只鉴定到这个分类单元的read数<比如属,就是只包含确定到这个属,但不包括可以鉴定到这个属之下的种的read,这个是和第2列的区别> )
备注:与测序read个数相同
4.A rank code, indicating (U)nclassified<未分类>, (R)oot, (D)omain, (K)ingdom,
(P)hylum, (C)lass, (O)rder, (F)amily, (G)enus<属>, or (S)pecies<种>.
门纲目科属种
备注:分类等级码(例:G2,通过一个数字指示与该等级的距离,表示分类单元在属和种之间的等级码,the grandparent taxon is at the genus rank)
5.NCBI taxonomic ID number (NCBI分类号)
6.Indented scientific name(缩进的学名)
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