evaluation of rnaseq results (Waddlia chondrophila)

• fastqc
• map do reference genome
• qualimap
• read counts with htseq
• extraction of mapped reads
• downsampling of mapped reads => mapping ==> rarefaction curve of the number of CDS with a minimum of X mapped reads

TODO

• add automated download of reference genome (+ annotation)
• normalization of read counts
• differential expression analyses
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