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GenomeRIK / tama

Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
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the tama bed output further analysis #73

Closed NahlaHu closed 2 years ago

NahlaHu commented 2 years ago

Hi Richard,

So, if we have now the tama output bed files, how bed files can be used to start the transcriptome analysis; in-terms of detection of new isoforms and evaluation of used reference completeness.

Thanks Nahla

GenomeRIK commented 2 years ago

Hi Nahla,

If you have a reference annotation you want to compare to, you can use TAMA Merge to do the comparison (make sure to read the wiki thoroughly).

You can also feed your annotation bed files into the TAMA ORF/NMD pipeline to get coding region predictions and matching to known proteins.

Cheers, Richard

NahlaHu commented 1 year ago

Thank you

On Sun, Mar 27, 2022 at 12:59 PM GenomeRIK @.***> wrote:

Closed #73 https://github.com/GenomeRIK/tama/issues/73.

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