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- | ====== Data used to test the tools included in R NOISeq package ====== | + | ====== Data used to test the R NOISeq package ====== |
===== ENCODE data ===== | ===== ENCODE data ===== | ||
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version 0.5.3p3. | version 0.5.3p3. | ||
+ | {{:prostatecancercountdata.txt.zip|Prostate Cancer count matrix}} | ||
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+ | ====== R code used to test the NOISeqBIO method ====== | ||
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+ | ===== Simulation algorithm ===== | ||
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+ | R scripts for simulating RNA-seq count data for two experimental conditions: | ||
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+ | {{:simulation_high.r|Simulation of HIGH variability scenarios}} | ||
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+ | {{:simulation_low.r|Simulation of LOW variability scenarios}} | ||
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+ | ===== Differential expression on simulated data ===== | ||
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+ | These scripts show how the differential expression methods were applied on simulated data sets: | ||
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+ | {{:methodsonsimulations.r|DE methods on simulations}} | ||
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+ | {{:globalsimulationsanalysis.r|Analysis of DE results}} | ||
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+ | ===== Analysis on experimental data ===== | ||
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+ | R script used for generating exploratory figures, differential expression and functional enrichment analysis on experimental datasets (F.oxysporum and Prostate Cancer): | ||
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+ | {{:resultsexperimentaldata.r|Experimental Data Analysis}} |