Hi, I am using ChAMP "2.29.1" and ChAMPdata "2.31.1" and am encountering the same issue. Is there a fix for this? I downloaded the development version of both as recommended.
[ Section 3: Use Annotation Start ]
Reading EPIC Annotation >>
!!! Important, since version 2.29.1, ChAMP set default EPIC arraytype as EPIC version 2.
You can set 'EPIC' or 'EPICv2' to use version 2 EPIC annotation
If you want to use the old version (v1), please specify arraytype parameter as EPICv1.
For 450K array, still use 450K
Fetching NEGATIVE ControlProbe.
Totally, there are 411 control probes in Annotation.
Your data set contains 411 control probes.
Generating Meth and UnMeth Matrix
Extracting Meth Matrix...
Totally there are 937055 Meth probes in EPIC Annotation.
Your data set contains 937055 Meth probes.
Extracting UnMeth Matrix...
Totally there are 937055 UnMeth probes in EPIC Annotation.
Your data set contains 937055 UnMeth probes.
Error in champ.import(path, arraytype = "EPIC") :
Meth Matrix and UnMeth Matrix seems not paried correctly.
Hi, I am using ChAMP "2.29.1" and ChAMPdata "2.31.1" and am encountering the same issue. Is there a fix for this? I downloaded the development version of both as recommended.
[ Section 3: Use Annotation Start ]
Reading EPIC Annotation >> !!! Important, since version 2.29.1, ChAMP set default EPIC arraytype as EPIC version 2. You can set 'EPIC' or 'EPICv2' to use version 2 EPIC annotation If you want to use the old version (v1), please specify arraytype parameter as EPICv1. For 450K array, still use 450K
Fetching NEGATIVE ControlProbe. Totally, there are 411 control probes in Annotation. Your data set contains 411 control probes.
Generating Meth and UnMeth Matrix Extracting Meth Matrix... Totally there are 937055 Meth probes in EPIC Annotation. Your data set contains 937055 Meth probes. Extracting UnMeth Matrix... Totally there are 937055 UnMeth probes in EPIC Annotation. Your data set contains 937055 UnMeth probes. Error in champ.import(path, arraytype = "EPIC") : Meth Matrix and UnMeth Matrix seems not paried correctly.