Page Index - ParkinsonLab/microbiome_helper GitHub Wiki
85 page(s) in this GitHub Wiki:
- Home
- Introduction
- Requirements
- Background
- Bug-fix
- Initial Set-up
- Browse data
- Stitching paired-end reads
- Quality metrics of stitched reads
- Filtering reads by quality and length
- Conversion to FASTA and removal of chimeric reads
- Run open-reference OTU picking pipeline
- Remove low confidence OTUs
- Rarify reads
- Diversity analyses
- UniFrac beta diversity analysis
- Alpha diversity analysis
- Testing for statistical differences
- Using STAMP to test for particular differences
- 16S Bacteria and Archaea Standard Operating Procedure
- Please reload this page
- 16S tutorial (long running time)
- Please reload this page
- 16S tutorials
- Please reload this page
- Additional QIIME analysis
- Please reload this page
- Alpha and beta diversity
- Please reload this page
- Brief description of scripts
- Please reload this page
- CBW 2016 PICRUSt tutorial
- Please reload this page
- Download_From_SRA
- Please reload this page
- Functional profiling
- Please reload this page
- Home Copy
- Please reload this page
- Home bk
- Please reload this page
- Introductory Linux Quiz
- Please reload this page
- Metagenomics Sequencing Pre processing
- Please reload this page
- Microbiome Helper Virtual Box
- Please reload this page
- MicrobiomeHelper Virtual Box
- Please reload this page
- OTU picking
- Please reload this page
- PICRUSt tutorial
- Please reload this page
- PICRUSt Tutorial with de novo Variants
- Please reload this page
- PICRUSt workflow
- Please reload this page
- Predict phenotypes
- Please reload this page
- Questions
- Please reload this page
- Questions2
- Please reload this page
- Quick Introduction to GNU Parallel
- Please reload this page
- Remove chimeric reads
- Please reload this page
- Remove low quality reads
- Please reload this page
- Requirements
- Please reload this page
- Sequence error correction
- Please reload this page
- Sequence QC
- Please reload this page
- Software References
- Please reload this page
- STAMPS 2016 PICRUSt Tutorial
- Please reload this page
- Stitch reads
- Please reload this page
- Subsampling Metagenomic FASTQs
- Please reload this page
- Taxonomic composition
- Please reload this page