[base] Agilent and LIMMA in BASE

2012-04-27 Thread Ross Chapman
Hi I want to analyse Agilent microarrays in BASE 2.17.2 using LIMMA methods to perform background subtraction, normalisation and significance testing. Does anyone know if there is a suitable plugin available to perform these analyses? Thanks Ross -- Dr Ross Chapman Senior Bioinformatician

[base] reseting root password

2014-02-16 Thread Ross Chapman
Hi all I have inherited the management of a BASE 2 solution for managing microarray data. I do not have access to the Root password, but I do have administrator rights. Am I able to reset the root password, will this have any impact on how BASE operates? Thanks for your help. Regards Ross

[base] RMAexpress

2015-02-02 Thread Ross Chapman
) Can you suggest a possible cause and solution? Many thanks Ross -- Dr Ross Chapman Senior Bioinformatician MIMR-PHI Institute of Medical Research 27-31 Wright Street, Clayton, VIC 3168 (03) 99024766 -- Dive

[base] BASE reporter fields problem

2015-01-11 Thread Ross Chapman
database version. The same plugins still work fine on the original BASE2 application. Can you point me to where the reporter fields are set and how I can correct the annotations in the new instance. Many thanks Ross -- Dr Ross Chapman Senior Bioinformatician MIMR-PHI Institute of Medical Research 27

Re: [base] basedb-users Digest, Vol 70, Issue 1

2015-03-10 Thread Ross Chapman
edit your Subject line so it is more specific than Re: Contents of basedb-users digest... Today's Topics: 1. Re: BASE reporter fields problem (Nicklas Nordborg) 2. BASE 3.4 has been released (Nicklas Nordborg) 3. RMAexpress (Ross Chapman) 4. Re: RMAexpress (Jari H?kkinen) 5

[base] (no subject)

2015-03-03 Thread Ross Chapman
be and of any potential solution. Many thanks Ross Chapman net.sf.basedb.core.BaseException: Unable to import root bioassay. at se.lu.thep.affymetrix.RMAExpress.storeResult(RMAExpress.java:218) at se.lu.thep.affymetrix.AbstractExternalBinaryPlugin.run(AbstractExternalBinaryPlugin.java:263