MSstats Plus error message for model fit

[Roneldine Mesidor]

Hi all,

After seeing the last message about MSstats Plus, I decided to check it out. I definitely got some interesting results and want to use it more often. However, I am not able to check the model fit. When I Try:
                    #Check Model Fit
                    health_info = CheckDataHealth(msstats_input)
                    skew_score = health_info[[2]]

I got the following error:

                 Error in CheckDataHealth(msstats_input) :

                 could not find function "CheckDataHealth"

Also, I am currently using the "FGShapeQualityScore(MS2)", the FGShapeQualityScore(MS1) and the EGDeltaRT metrics for MSstats Plus. Are there any others I should add that are as important?

Thank you,

Roneldine

[Devon Kohler]

Hi Roneldine,

CheckDataHealth should be an exported function by MSstatsConvert. Can you try to run `MSstatsConvert::CheckDataHealth` and see if you get the same error?

In terms of columns used in the model, I have found that "FGShapeQualityScore(MS2)", the FGShapeQualityScore(MS1) and the EGDeltaRT are the best metrics at the moment. There may be others that provide additional insight, however I think these three give a good baseline of peak quality.

Devon

[Roneldine Mesidor]

Thanks for the advice!

When I tried MSstatsConvert::CheckDataHealth, I get the following error:

[Anthony Wu]

Hi Roneldine,

What version of MSstatsConvert do you have installed?  CheckDataHealth should be exported in version 1.20.0, but if you have an older version of MSstatsConvert, then it won't be exported.

Tony

On Wednesday, February 11, 2026 at 3:44:23 PM UTC-5 Roneldine Mesidor wrote:

[Roneldine Mesidor]

Thanks! I was using an older version, and now that I have updated it, I can do the Check step.

Roneldine