10X genomics bam文件的格式

2020-11-19 本文已影响0人生信编程日常

samtools view -@ 8 possorted_genome_bam.bam |head

Line	Tag	Description	Example
1	NA	Query name	A00682:284:HYVYMDSXX:4:1219:23954:12164
2	NA	Flag	0
3	NA	Reference name	1
4	NA	Position	12434
5	NA	Mapping quality	255
6	NA	Cigar string	130M286409N20M
7	NA	Reference name of mate	*
8	NA	Position of mate	0
9	NA	Template length	0
10	NA	Sequence	CTCCAAAGA....ATCAAAAAAAAAAAAAA
11	NA	Sequence quality	FFFFFFFFFFFFFFFFFF....
12	NH	Number of reported alignments for query	NH:i:1
13	HI	Query hit index	HI:i:1
14	AS	Alignment score	AS:i:135
15	nM	Number of mismatches per pair	nM:i:5
16	RE	Region type (E = exonic, N = intronic, I = intergenic)	RE:A:I
17	BC	Sample index read	BC:Z:TCGCCAGC
18	QT	Sample index read quality	QT:Z:FFFFFFFF
19	CR	Cell barcode	CR:Z:GCGTGCACATAGAAAC
20	CY	Cell barcode read quality	CY:Z:FFFF:FFFFFF,FFFF
21	CB	Cell barcode that is error-corrected and confirmed against a list of known-good barcode sequences	CB:Z:GCGTGCACATAGAAAC-1
22	UR	Unique Molecular Identifier (UMI)	UR:Z:CGCTCACGCATA
23	UY	UMI read quality	UY:Z::FFFFFFFFFFF
24	UB	UMI that is error-corrected among other molecular barcodes with the same cellular barcode and gene alignment	UB:Z:CGCTCACGCATA
25	RG	Read group	RG:Z:Day1:0:1:HWJ5VDSXX:4

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