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Koll, Raphael
ElbeEstuarineZander
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cfa2522e
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cfa2522e
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1 year ago
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Raphael Koll
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GitHub
1 year ago
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@@ -3,18 +3,19 @@ A repository for the analysis of tissue-specific transcriptomes and 16S data for
The Analysis splits into 5 parts
1:
SL_Linux_16.01.2024.Rmd contains
RNAseq & 16S Dataprocessing-Pipeline
for
Linux-HPC
1: RNAseq & 16S Dataprocessing-Pipeline
used on
Linux-HPC
: SL_Linux_16.01.2024.Rmd
2:
SL_16S_16.01.24_Paper.Rmd contains the full 16S Analysis in R
2:
Bacteria Metabarcoding Analysis based in V3V4 16S in R: SL_16S_16.01.24_Paper.Rmd
3:
SL_RNA_16.01.24_Paper.Rmd contain the full RNAseq Analysis in R
3:
Transcriptome analysis for tissue specific RNAseq in R: SL_RNA_16.01.24_Paper.Rmd
4 & 5: SL_WGCNA_Part1_16.01.2024_Paper.Rmd & SL_WGCNA_Part2_16.01.2024_Paper.Rmd
contain the Network Analysis Pipeline in R
4 & 5:
Network Analysis Pipeline in R:
SL_WGCNA_Part1_16.01.2024_Paper.Rmd & SL_WGCNA_Part2_16.01.2024_Paper.Rmd
Additional files:
Every .rmd is accompanied by a markdown .html that includes a subset of plots and results
SL_Functions_16.01.24_Paper.Rmd is a long Functions-File that has to be saved in the R-directory and loaded in section ## 1.2 Functions in every .rmd
There Exists a Packrat-bundle for private library sharing that has to be requested due to size limitation
Every .rmd is accompanied by a markdown .html that includes a subset of plots and results
Sequence data are deposited in the ENA Sequence Read archive under study PRJEB71116
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