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This repository houses scripts developed in support of a mRNA-seq/mass spectrometry -omics project for my MS thesis.

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62 Commits
API_GOKeywordNetworkMapper
API_GOKeywordNetworkMapper
 
 
Script 1 InChI Key and SMILES Identifiers to Pubchem CID Converter.py
Script 1 InChI Key and SMILES Identifiers to Pubchem CID Converter.py
 
 
Script 10 DGE_Volcano_Plot_Analysis.R
Script 10 DGE_Volcano_Plot_Analysis.R
 
 
Script 11 GeneratingMatchedDGEtoAverageVST
Script 11 GeneratingMatchedDGEtoAverageVST
 
 
Script 12 HeLaSpecific_PCAandkmeanscluster.R
Script 12 HeLaSpecific_PCAandkmeanscluster.R
 
 
Script 13 ZscoreScaledpheatmapsPipelinefromVST_finaldraft.R
Script 13 ZscoreScaledpheatmapsPipelinefromVST_finaldraft.R
 
 
Script 14 GO Keyword Network Mapper.py
Script 14 GO Keyword Network Mapper.py
 
 
Script 15 Gene_Set_Enrichment_Analysis.R
Script 15 Gene_Set_Enrichment_Analysis.R
 
 
Script 16 merged_topGO_v1
Script 16 merged_topGO_v1
 
 
Script 2 Boxplots.R
Script 2 Boxplots.R
 
 
Script 3 Linux_Tools_Installation
Script 3 Linux_Tools_Installation
 
 
Script 4 R_Libraries_Installed
Script 4 R_Libraries_Installed
 
 
Script 5 Read_Quality_Control
Script 5 Read_Quality_Control
 
 
Script 6 STAR_Alignment
Script 6 STAR_Alignment
 
 
Script 7 Samtools_Sort_and_Index_Alignment
Script 7 Samtools_Sort_and_Index_Alignment
 
 
Script 8 HTSeq_Feature_Counts
Script 8 HTSeq_Feature_Counts
 
 
Script 9 DESeq2_DGE_Analysis.R
Script 9 DESeq2_DGE_Analysis.R
 
 
TopGO_HeLA0RvsHeLaControl_GOBP_Template.R
TopGO_HeLA0RvsHeLaControl_GOBP_Template.R
 
 
TopGO_HeLA0RvsHeLaControl_GOCC_Template.R
TopGO_HeLA0RvsHeLaControl_GOCC_Template.R
 
 
TopGO_HeLA0RvsHeLaControl_GOMF_Template.R
TopGO_HeLA0RvsHeLaControl_GOMF_Template.R
 
 
TopGO_HeLA8RvsHeLa0R_GOBP_Template.R
TopGO_HeLA8RvsHeLa0R_GOBP_Template.R
 
 
TopGO_HeLA8RvsHeLa0R_GOCC_Template.R
TopGO_HeLA8RvsHeLa0R_GOCC_Template.R
 
 
TopGO_HeLA8RvsHeLa0R_GOMF_Template.R
TopGO_HeLA8RvsHeLa0R_GOMF_Template.R
 
 
TopGO_HeLA8RvsHeLaControl_GOBP_Template.R
TopGO_HeLA8RvsHeLaControl_GOBP_Template.R
 
 
TopGO_HeLA8RvsHeLaControl_GOCC_Template.R
TopGO_HeLA8RvsHeLaControl_GOCC_Template.R
 
 
TopGO_HeLA8RvsHeLaControl_GOMF_Template.R
TopGO_HeLA8RvsHeLaControl_GOMF_Template.R
 
 

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This repository houses scripts developed in support of a mRNA-seq/mass spectrometry -omics project for my MS thesis.

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