GAM file columns?

Question

[Uveyik]

In the gam file format specification, it says it has 12 mandatory fields. But in the example it has more columns with some cigar strings. What does they stand for? (cg:Z:6M and cg:Z:7M in the example file) Example file in the link is the following

read1  6  0  6  +  >s2>s3>s4           12  2   8  6  6  60  cg:Z:6M
read2  7  0  7  +  >s2>s5>s6           11  1   8  7  7  60  cg:Z:7M

[Pierre Lindenbaum]

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Answer 1

[Pierre Lindenbaum]

https://github.com/lh3/gfatools/blob/master/doc/rGFA.md#the-graph-alignment-format-gaf

GAF is a TAB delimited format for sequence-to-graph alignments. It is a strict superset of the PAF format.

PAF : https://github.com/lh3/miniasm/blob/master/PAF.md

A PAF file may optionally contain SAM-like typed key-value pairs at the end of each line.