Changes between Version 7 and Version 8 of gene_exon_transcript_count


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Timestamp:
Nov 7, 2013 10:35:09 AM (11 years ago)
Author:
pacthoen
Comment:

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  • gene_exon_transcript_count

    v7 v8  
    1111From these the median Spearman correlation for each sample to each other sample was calculated. This is also called the D-statistic. The D-statistics (ranked from low to high) can be found in this file [raw-attachment:Median_pairwise_spearman_correlations_complete_gene_data_run_1.txt Median Spearman correlations][[BR]]
    1212
    13 [raw-attachment:Median_pairwise_spearman_correlations_by_flowcell_complete_gene_data_run_1.pdf Boxplot of median Spearman correlations grouped by flowcell] (Martijn Vermaat)
     13[raw-attachment:Median_pairwise_spearman_correlations_by_flowcell_complete_gene_data_run_1.pdf Boxplot of median Spearman correlations grouped by flowcell] (Martijn Vermaat)[[BR]]
     14
     15[raw-attachment:Dstat_biobank_boxplot.pdf] Boxplot of median Spearman correlations grouped by biobank] [[BR]]
     16
     17After removing the two samples with very low Spearman correlations to all other samples, the distance matrix was calculated (1 - correlation matrix), and a two-dimensional MDS plot was created using the R function cmdscale. [raw-attachment:mdsplot_filt_colored_biobank.pdf This is the resulting mdsplot]. The plot was colored according to the following color scheme: [[BR]]
     18"LL"  - gold[[BR]]
     19"RS"  - blue[[BR]]
     20"CODAM" - orange[[BR]]
     21"LLS" - pink[[BR]]
     22"Amsterdam" - darkred[[BR]]
     23
     24