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jasperlinthorst / reveal

Graph based multi genome aligner
MIT License
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Output ORI field with `reveal rem` #23

Closed Olavhaasie closed 6 years ago

Olavhaasie commented 6 years ago

Is it possible to let the rem command build a graph with the ORI field as optional field for segment lines? This field gives the origin of the segment.

Actual output:

S       1       ATCCT

Expected output:

H       ORI:0;1;2
S       1       ATCCT   *       ORI:Z:0;1
jasperlinthorst commented 6 years ago

No, as in, there’s no option for that.. The ORI tags on the S segment lines is how I used to encode paths previously. The current version depends on the P path lines. Parsing those lines to obtain the same information shouldn’t be too hard.

Good luck, Jasper

On Tue, 26 Jun 2018 at 21:41, Olavhaasie notifications@github.com wrote:

Is it possible to let the rem command build a graph with the ORI field as optional field for segment lines? This field gives the origin of the segment.

Actual output:

S 1 ATCCT

Expected output:

H ORI:0;1;2 S 1 ATCCT * ORI:Z:0;1

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