Question about non-integer abundance values in macrel abundance output

Zhouyang Fan

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Oct 12, 2025, 4:42:55 AMOct 12

to ampsphere-users

Dear Macrel developers,

I have a question regarding the output of the macrel abundance command.
According to the Macrel's official documentation, this mode should return a table where the second column represents the number of reads mapped to each peptide. However, in my results, the abundance values are floating-point numbers rather than integers.

Could you please clarify whether this is expected behavior, or if the output should normally contain integer counts?

Thank you very much for your time and for developing Macrel.

Best regards,
Zhouyang Fan

Célio Dias Santos Júnior

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Oct 13, 2025, 5:30:42 AMOct 13

to Zhouyang Fan, ampsphere-users

Dear Zhouyang,

Thank you for reporting this issue.

To help us investigate, could you please confirm which version of Macrel you are using? The source version on GitHub has been updated to address this problem, and I encourage you to try it.

If the issue persists after updating, please let me know.

Best regards,

Celio

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Zhouyang Fan

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Oct 13, 2025, 11:24:29 AMOct 13

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Dear Celio,

Thank you for your prompt response and for the clarification.

I am using the version of Macrel I downloaded earlier this year in March. I will update to the latest version from GitHub and test the macrel abundance command again to see if the floating-point issue is resolved.

I will follow up with feedback once I have tried the new version.

Thank you again for your assistance.

Best regards,
Zhouyang Fan

Zhouyang Fan

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Oct 15, 2025, 12:11:39 AMOct 15

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Dear Celio,

After updating to the latest version of Macrel from GitHub, I found that the issue with the floating-point abundance values has been resolved, and everything is working as expected.