Welcome to seqbuster/seqcluster’s documentation!

Analysis of small RNA sequencing data. It detect unit of transcription over the genome, annotate them and create an HTML interactive report that helps to explore the data quickly.

Contents:

• Installation
  • Seqcluster
  • Tools dependecies for a full small RNA pipeline
  • Data
  • R package
• Citation
• Getting started
  • clustering of small RNA sequences
  • Interactive HTML Report
  • Easy start with bcbio-nextgen.py
• Outputs
  • seqcluster
  • Report
• Examples of small RNA analysis
  • miRQC data
• miRNA annotation
  • Processing of reads
  • Prepare databases
  • miRNA/isomiR annotation with JAVA
  • Convert to GFF3-srna
  • Post-analysis with R
  • Manual of miraligner(JAVA)
• Collapse fastq(.gz) files
• Handling multi-mapped reads
• Tools for downstream analysis
  • Web-servers
  • Command-lines
• Relevant papers about isomiRs and other novel small RNAs with functional relevance
  • Validation
  • IsomiRs
  • General
  • Targets
  • Techonolgy
• Documentation
• Classes

Visit GitHub code

I am in the process to document all classes and methods

Indices and tables

• Index
• Module Index
• Search Page