Repository for code shared at the RNAseq Symposium, 5/4/2016.
FindConfounds.R -> Look for confounds in datMeta of the CommonMind data.
PC_Corr.R -> See the correlation between datExpr principal componenets and covariates.
LM_ConfoundRemove.R -> Conservatively remove confounds from datExpr and do a t-test with Diagnosis coefficient.
rlogNorm_OutlierRemovedData_CMshort.RData -> datMeta, datSeq, and datExpr to use with PC_Corr.R. Normalized and Outlier Removed Common Mind Consortium Data.
FinalProcData_CMshort.RData -> datMeta, datSeq, and datExpr to use with FindConfounds.R and LM_ConfoundRemove.R. Normalized and Outlier Removed Common Mind Consortium Data with sequencing statistic principal components.
datMeta_CoVariates_CM.pdf -> Example output from FindConfounds.R.
SeqStats_Comparison_OutlierRm_seqPCs.pdf -> Example output from PC_Corr.R
DiffExpr_Bipolar_CM.csv -> Example output from LM_ConfoundRemove.R.