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implementation of samtools#100
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lindenb committed Oct 12, 2015
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2 changes: 1 addition & 1 deletion SAMv1.tex
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Expand Up @@ -200,7 +200,7 @@ \subsection{The header section}
& {\tt AS} & Genome assembly identifier. \\\cline{2-3}
& {\tt M5} & MD5 checksum of the sequence in the uppercase, excluding spaces but including pads (as `*'s).\\\cline{2-3}
& {\tt SP} & Species.\\\cline{2-3}
& {\tt AN} & Reference sequence Aternative Names. A semicolon separated list of alternative names for this sequence e.g: {\tt 1;01;CM000663;NC\_000001.10}. Tools are free to use this information to decode the users' positions but the name displayed in the output is always {\tt SN}.\\\cline{2-3}
& {\tt AN} & Reference sequence Alternative Names. A semicolon separated list of alternative names for this sequence e.g: {\tt 1;01;CM000663;NC\_000001.10}. Tools are free to use this information to decode the users' positions but the name displayed in the output is always {\tt SN}.\\\cline{2-3}
& {\tt UR} & URI of the sequence. This value may start with one of the standard
protocols, e.g http: or ftp:. If it does not start with one of these protocols, it is assumed to be a file-system path.\\\cline{1-3}
\multicolumn{2}{|l}{\tt @RG} & Read group. Unordered multiple {\tt @RG} lines are allowed.\\\cline{2-3}
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