Hi everyone,
I need to create a grid-based workflow for the analysis of data from shotgun sequencing to analyse the microbiome.
I have a list of bio informatic tools I need to use (FastQC, TrimGalore, ARGs-OAP, HUMAnN3+Maaslin, MuMaMe, metaSPAdes, metaBAT, checkM, Decontam, kraken2, Bracken, DeSeq2, vegan).
Currently I roughly have this:
INPUT -> fastQC -> trimgalore -> ASSEMBLY
ASSEMBLY -> metaSPADES -> metaBAT -> QC (checkM)
ArgOAP -> MuMaMe -> STATISTICAL ANALYSIS
ASSEMBLY -> HumAnN3+Maaslin -> STATISTICAL ANALYSIS (deseq 2 + vegan)
Do you guys have any idea whether this is good?
Thank in advance
I need to create a grid-based workflow for the analysis of data from shotgun sequencing to analyse the microbiome.
I have a list of bio informatic tools I need to use (FastQC, TrimGalore, ARGs-OAP, HUMAnN3+Maaslin, MuMaMe, metaSPAdes, metaBAT, checkM, Decontam, kraken2, Bracken, DeSeq2, vegan).
Currently I roughly have this:
INPUT -> fastQC -> trimgalore -> ASSEMBLY
ASSEMBLY -> metaSPADES -> metaBAT -> QC (checkM)
ArgOAP -> MuMaMe -> STATISTICAL ANALYSIS
ASSEMBLY -> HumAnN3+Maaslin -> STATISTICAL ANALYSIS (deseq 2 + vegan)
Do you guys have any idea whether this is good?
Thank in advance