Changes between Version 2 and Version 3 of xQTLBioinformaticianReview


Ignore:
Timestamp:
2011-03-05T09:51:44+01:00 (14 years ago)
Author:
Morris Swertz
Comment:

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  • xQTLBioinformaticianReview

    v2 v3  
     1== Notes Morris xQTL workbench review meeting 4 march 2011 @ GBIC ==
     2Attending: Yang, Maria, Frank, Danny, Joeri, Morris
     3
     4Priorities:
     5(1) Loading data foramts, universal data loading functions
     6(2) Mislabeling scripts [need 'news' place where this can be viewed']
     7(3) Pathway picture + QTL + linkout + gene expression + phenotypes
     8
     9Frank:
     10* Storing your data
     11* Running quick analyses
     12* Quality control of the data (standard, missing markers)
     13* Every new collaboration data sets are different slightly; standardized solution
     14* Time investing of matrix cleaing (missing data, wrong columns); have these times of parsing
     15* Pulldown button for format parsers; inventory of how these data sets look like
     16* Set based select all the trans regulated probes
     17
     18Maria:
     19* Starting to learn R
     20* Having a button for standard analyses
     21* Preliminary analysis tool
     22* Prefer to look at the code
     23
     24Yang:
     25* To do analyses and run it in parallel myself
     26* Can test my code on the machine and get error message (requirement)
     27* Expected gains: have more R tools on this, for pictures, tables
     28* Expected gains:
     29* Standard importers for Agilent, Affymetrix, Nimblegen
     30* Do you show all annotation of a particular gene, which gene it is, located, is there a SNP
     31* Can we make a pathway picture; I want to submit all my genes there and I know the relations. See QTL and Pathway plots together, possibly in different conditions or factors.
     32
     33Danny:
     34* What additional you want (boxploting, histograms, common jobs)
     35* Would the data formats you use
     36
     37Joeri:
     38* Want to have pathway
     39
     40Name candidate:
     41Omics workbench.
     42
     43
    144== Notes Joeri xQTL workbench review meeting 4 march 2011 @ GBIC ==
    245