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I will analyze shotgun metagenomic data
Biologist Statistical Analysis and Bioinformatics
I am a biologist and researcher specializing in statistical analysis, bioinformatics, microbiology, and microbial ecology. I work with R, DADA2, QIIME2, Phyloseq, and QGIS to analyze biological and en...
About this Gig
Need help analyzing shotgun metagenomic data? I can help you process, assemble, analyze, visualize, and interpret your metagenomic datasets.
I have practical experience analyzing shotgun metagenomes using established bioinformatics workflows, including MEGAHIT, metaSPAdes, SqueezeMeta, and R.
I can help with:
Quality control and preprocessing
Metagenome assembly
Taxonomic profiling and community composition
Functional profiling and annotation
Abundance and comparative analysis
Statistical analysis and differential abundance
Publication-quality visualizations
Biological interpretation
Reproducible analysis workflows
I select the workflow according to your research question, sequencing data, experimental design, and metadata.
Please contact me before ordering if you are unsure which package or workflow is appropriate for your dataset.
FAQ
What types of metagenomic data can you analyze?
I can work with shotgun metagenomic datasets for taxonomic, functional, abundance, statistical, and comparative analyses. Please contact me before ordering so I can review your dataset and objectives.
Can you analyze raw FASTQ files?
Yes. Depending on the package, I can work with raw FASTQ files and perform quality assessment, preprocessing, assembly, and downstream metagenomic analysis.
Can you assemble my metagenome?
Yes. I can perform metagenome assembly using MEGAHIT or metaSPAdes, depending on the characteristics of the dataset and the objectives of the analysis.
Do you use SqueezeMeta?
Yes. SqueezeMeta is one of the workflows I use for integrated metagenomic analysis. I can also use MEGAHIT or metaSPAdes for assembly and complementary tools when appropriate.
Can you perform functional profiling or annotation?
Yes. Functional profiling and annotation can be included depending on the dataset, research question, and selected package. The specific workflow and tools will be determined according to the project requirements.
Can you analyze differential abundance?
Yes, when the experimental design, metadata, sample size, and data structure support an appropriate differential abundance analysis.
Can you create publication-quality figures?
Yes. Depending on the package, I can create publication-quality figures for taxonomic composition, abundance, functional profiles, statistical comparisons, and other appropriate metagenomic results.
Can you help me choose the appropriate metagenomic workflow?
Yes. I can review your research question, sequencing information, metadata, study design, and available data and recommend an appropriate analysis workflow.
