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stat-lab / EvalSVcallers

Evaluate the performances (precision and recall) of structural variation (SV) callers
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Seeking help with F measure statistical analysis #15

Closed Mkddb closed 3 years ago

Mkddb commented 3 years ago

Hello Team,

Sorry for the off topic again. I am stucked at the "F measure analysis". I follwed the similar instructions to find the "nF (normalized F measures) as given in the manuscript. still getting the "final nF values" with a difference of ratio of 1.5 times for Deletion category. can you please check the analysis below and assist me to sort out the discrepancy. I have taken the raw data from Supplementary Table S19.

F measure analysis.xlsx F measure analysis.pdf

stat-lab commented 3 years ago

The mean F-measures were calculated with the F-measures of all the tools (a total of 69 tools). The presented in Table S19 are from only good tools. The tools used in your analysis seem to be only those included in Table S19.

2020/11/20 22:24、Mkddb notifications@github.comのメール:

Hello Team,

Sorry for the off topic again. I am stucked at the "F measure analysis". I follwed the similar instructions to find the "nF (normalized F measures) as given in the manuscript. still getting the "final nF values" with a difference of ratio of 1.5 times for Deletion category. can you please check the analysis below and assist me to sort out the discrepancy. I have taken the raw data from Supplementary Table S19.

F measure analysis.xlsx https://github.com/stat-lab/EvalSVcallers/files/5573674/F.measure.analysis.xlsx F measure analysis.pdf https://github.com/stat-lab/EvalSVcallers/files/5573688/F.measure.analysis.pdf — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/stat-lab/EvalSVcallers/issues/15, or unsubscribe https://github.com/notifications/unsubscribe-auth/ADIBV3G7WNXEXAHO2E27QK3SQZUYBANCNFSM4T4YYTUQ.

Mkddb commented 3 years ago

Thanks for the clarification.

Yes, i tried with the tools in Table S19 and calculated the mean for the corresponding category, say tools given in S19 for Deletion. It would be really helpful, if the list/table of F-measures of all the tools (69 tools) can be shared for all SV categories from which mean F measure to be calculated. or the final mean F-measure value for all SV categories ?

Thanks in advance.

stat-lab commented 3 years ago

That can be done with the data of another supplementary Tables in our paper.

2020/11/21 14:36、Mkddb notifications@github.comのメール:

Thanks for the clarification.

Yes, i tried with the tools in Table S19 and calculated the mean for the corresponding category, say tools given in S19 for Deletion. It would be really helpful, if the list/table of F-measures of all the tools (69 tools) can be shared for all SV categories from which mean F measure to be calculated. or the final mean F-measure value for all SV categories ?

Thanks in advance.

— You are receiving this because you commented. Reply to this email directly, view it on GitHub https://github.com/stat-lab/EvalSVcallers/issues/15#issuecomment-731512554, or unsubscribe https://github.com/notifications/unsubscribe-auth/ADIBV3CKRAEIDH67VLYNJIDSQ5GXDANCNFSM4T4YYTUQ.

Mkddb commented 3 years ago

Which tables ? please specify, if possible.

stat-lab commented 3 years ago

Tables S5-S9.

2020/11/21 19:13、Mkddb notifications@github.comのメール:

Which tables ? please specify, if possible.

— You are receiving this because you commented. Reply to this email directly, view it on GitHub https://github.com/stat-lab/EvalSVcallers/issues/15#issuecomment-731558276, or unsubscribe https://github.com/notifications/unsubscribe-auth/ADIBV3BPUZILCVNNGEORT5TSQ6HELANCNFSM4T4YYTUQ.

Mkddb commented 3 years ago

Thanks for the informaion. It was really helpful.