SeMa-Trap:Secondary Metabolite Transcriptomic Pipeline
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Reference set
Actinobacteria
Alpha-Proteobacteria
Beta-Proteobacteria
Delta_Epsilon-Proteobacteria
Gamma-Proteobacteria
Firmicutes
Cyanobacteria
Fusobacteria
Bacteroidetes
Chlamydiae
Tenericutes
Spirochaetes
Deinococcus-Thermus
Verrucomicrobia
Group1 [Aquificae, Calditrichaeota, Chrysiogenetes, Coprothermobacterota, Deferribactes]
Group2 [Armatimonadetes, Chloroflexi, Dictyoglomi, Synergistetes, Thermotogae]
Group3 [Acidobacteria, Balneolaeota, Chlorobi, Elusimicrobia, Fibrobacteres, Gemmatimonadetes, Ignavibacteriae, Lentisphaerae, Nitrospirae, Planctomycetes, Rhodothermaeota, Thermodesulfobacteria]
Unknown (This option deactivates phylum-specific housekeeping gene search)
Library Layout
Single
Paired End
RNA-Strandness
Non-stranded
Forward
Reverse
Organism Name
NCBI
Accession Number
Sequence
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Error:
Invalid accession number or sequence file
Warning: Please only use this option if no accession number available or the genome is not annotated in NCBI
Defined clusters
File of user generated clusters, click
here
to download an example
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Invalid accession number or sequence file
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Experiment Options
Comparative Analysis with SRA Run Accessions
Single Condition Analysis
Comparative Analysis by Uploading BAM Files
Please use
different
SRA
run
accession (starts with
"SRR"
or
"ERR"
) or "bam" file for each input field
Please use the
SAME
genome file (with the same
LOCUS
id's) with the genome you used to generate BAM format file.
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Condition 2
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Replicate for condition (e.g. control)
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