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PeptideDecoder #395

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DawnJYe opened this issue Oct 28, 2024 · 5 comments
Closed

PeptideDecoder #395

DawnJYe opened this issue Oct 28, 2024 · 5 comments
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question Further information is requested

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@DawnJYe
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DawnJYe commented Oct 28, 2024

Hi! Where is the code of "PeptideDecoder"? I failed to find it in depthcharge.
@DawnJYe DawnJYe added the bug Something isn't working label Oct 28, 2024
@bittremieux
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Casanovo is currently still using an older version of DepthCharge which we are in the process of updating (#350). The PeptideDecoder is available in DepthCharge v0.2.x here.

@bittremieux bittremieux added question Further information is requested and removed bug Something isn't working labels Oct 28, 2024
@DawnJYe
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DawnJYe commented Oct 28, 2024

Casanovo is currently still using an older version of DepthCharge which we are in the process of updating (#350). The PeptideDecoder is available in DepthCharge v0.2.x here.

OK，thanks. And what is "precursors" referenced in Decoder?

@bittremieux
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You mean in the forward function? Precisely as described in the docstring:

precursors : torch.Tensor of size (batch_size, 2)
The measured precursor mass (axis 0) and charge (axis 1) of each tandem mass spectrum

@DawnJYe
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DawnJYe commented Oct 28, 2024

You mean in the forward function? Precisely as described in the docstring:

precursors : torch.Tensor of size (batch_size, 2)
The measured precursor mass (axis 0) and charge (axis 1) of each tandem mass spectrum

I can't understand what is "precursors" stands for.

@bittremieux
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The information from the MS1 scan.

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