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carolzhou / multiPhATE2

multiPhATE with comparative genomics
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"consensus" parameter doesn't seem to work as intended #25

Closed Calvinblue closed 3 years ago

Calvinblue commented 3 years ago

Hello,

I am testing multiphate2 and I used it using the consensus parameter for the gene calling step. However, some CDS in the consensus.cgc file were only detected by a single gene caller.

Can you please confirm that I have not made a mistake here ? Thanks in advance!

Best regards

consensus.txt config.txt superset.txt

carolzhou commented 3 years ago

Please also provide the CGC_results.txt file. Thank you.

On Wed, Mar 10, 2021 at 8:21 AM Calvinblue @.***> wrote:

Hello,

I am testing multiphate2 and I used it using the consensus parameter for the gene calling step. However, some CDS in the consensus.cgc file were only detected by a single gene caller.

Can you please confirm that I have not made a mistake here ? Thanks in advance!

Best regards

consensus.txt https://github.com/carolzhou/multiPhATE2/files/6117324/consensus.txt config.txt https://github.com/carolzhou/multiPhATE2/files/6117325/config.txt superset.txt https://github.com/carolzhou/multiPhATE2/files/6117328/superset.txt

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Calvinblue commented 3 years ago

CGC_results.txt

Here it is !

carolzhou commented 3 years ago

Some gene calls that did not belong in the consensus set were being printed to the consensus.cgc file. I believe that code has now been repaired; those calls are now being filtered out. Please let me know if the code does not perform as expected.

Calvinblue commented 3 years ago

I have tested it and I think it works now, thank you for your help !