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LiLabAtVT / DeepTE

Neural network classification of TE
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RM table output incomplete #16

Open marco91sol opened 2 years ago

marco91sol commented 2 years ago

image

Dear,

I ran RepeatMasked using a mixture library deriving from denovo and transposable elements known in other species.

Attached, you can find the output of the table.

Is the problem deriving from header names?

I have two different header type:

1) >Euro_eel_AZBK01S000145.1_16703#__ClassI_nLTR_LINE_L1 #customized library 2) >TE_00016804_INT#__ClassI_nLTR_LINE_Jockey #denovo library

Thanks for the support!

Best regards, Marco

songliVT commented 2 years ago

It is unclear what the error is. Can you explain in more detail?

Song

On Mon, May 9, 2022 at 11:28 AM marco91sol @.***> wrote:

[image: image] https://user-images.githubusercontent.com/42739946/167442478-343230eb-e92f-48ea-9a69-1a35f9d5ca22.png

Dear,

I ran RepeatMasked using a mixture library deriving from denovo and transposable elements known in other species.

Attached, you can find the output of the table.

Is the problem deriving from header names?

I have two different header type:

1.

Euro_eel_AZBK01S000145.1_16703#__ClassI_nLTR_LINE_L1 #customized library

2.

TE_00016804_INT#__ClassI_nLTR_LINE_Jockey #denovo library

Thanks for the support!

Best regards, Marco

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marco91sol commented 2 years ago

The final table doesn't give me as output L1, L2 or other elements which instead are present in my file.out.

Hence, my question would be the following one:

Are these elements not recognized in the final table, because of the header in the library?

yanhaidong1 commented 2 years ago

Hey,

Sorry to reply late. Have you solved your issue? Basically, it does not matter what header for your input data, since DeepTE will assign the name of your input data after predicting other than using your input data to train.

Best wishes, Haidong