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==Modify Certain Genes so Every Probe Unique Barcode== *Need to modify outputFile_0gap_filtered gene names so that some probes have unique barcodes so decoding can be traced back to probe instead of gene **outputFile_0gap_filtered.txt -> outputFile_0gap_mod.txt ***Select certain genes to modify with "-p#" eg."GAD1-p5" **HumanBrain genes modified: SLC17A7, GNG4, PDE9A **MouseBrain genes modified: Gad1, Vip, Pvalb **MouseEmbryo genes modified: Myf5, Col1a1, Foxa1 *6 cycle: 4 'on' 2 'off' barcodes perl Probe2padlockFISSEQ_Apr2016_HumanBrain_6cycle_V4.pl > outputFile_0gap_FULL200_HumanBrain_V4.txt perl Probe2padlockFISSEQ_Apr2016_MouseBrain_6cycle_V7.pl > outputFile_0gap_FULL200_MouseBrain_V7.txt perl Probe2padlockFISSEQ_Apr2016_MouseEmbryo_6cycle_V6.pl > outputFile_0gap_FULL200_MouseEmbryo_V6.txt perl Probe2padlockFISSEQ_Apr2016_ControlGenes_6cycle_V8.pl > outputFile_0gap_FULL200_ControlGenes_V8.txt *Remove 2,909 probes from Human Control Genes to get to 12k oligos perl padlock2oligo_order.pl ("CA12k_Apr2016_OligosOrder.txt")
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