... | ... | @@ -3,9 +3,9 @@ graph TD |
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A[Raw data]-->B[Cleaning of low quality reads and human reads: cutadapt, sickle, bwa mem]
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A-->C[Quality control: FastQC and MultiQC]
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B-->C[Quality control: FastQC and MultiQC]
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B-->D[Taxonomic classification of reads: Kaiju]
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B-->E[Assembly: metaSPAdes or megahit]
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E-->F[Annotation: Prokka]
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F-->G[Clustering: cd-hit]
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B-->D[Taxonomic classification of read: Kaijus]
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B-->E[Assembly: generate per sample contigs with metaSPAdes or megahit]
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E-->F[Annotation of contigs: Prokka]
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F-->G[Clustering: removal of gene redundancy with cd-hit]
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G-->H[Quantification of reads for each gene cluster in each sample: featureCounts]
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``` |
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\ No newline at end of file |