From d029d5d7f8ead1f1de8d318045004a4a6f68f5fb Mon Sep 17 00:00:00 2001 From: Bonface Date: Fri, 9 Feb 2024 09:41:28 -0600 Subject: Update dataset RTF Files. --- general/datasets/HZI_LTCF_0313/processing.rtf | 1 + 1 file changed, 1 insertion(+) create mode 100644 general/datasets/HZI_LTCF_0313/processing.rtf (limited to 'general/datasets/HZI_LTCF_0313/processing.rtf') diff --git a/general/datasets/HZI_LTCF_0313/processing.rtf b/general/datasets/HZI_LTCF_0313/processing.rtf new file mode 100644 index 0000000..5502082 --- /dev/null +++ b/general/datasets/HZI_LTCF_0313/processing.rtf @@ -0,0 +1 @@ +

Read Mapping and Gene Expression Quantification RNA-seq reads were quality-trimmed using Trim Galore (31) and mapped to the mm10 reference genome or to the IAV PR8M genome using STAR (32). Counts were summarized at the gene level using the R-package Rsubread (33), normalized and log transformed using the R-package DESeq2 (34), and batchcorrected using the ComBat function of the R-package sva (35, 36). For annotations of genes, ENTREZID from Rsubread were matched to RefSeq annotations using R-package biomart (37).

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