Page Index - aechchiki/SIB_LongReadsWorkshop_Zurich17 GitHub Wiki
48 page(s) in this GitHub Wiki:
- Home
- Long Reads Workshop
- Table of content
- Acknowledgements
- Align the experimental transcripts to the reference genome
- Anchoring contigs and scaffolds using linkage maps
- Anchoring contigs scaffolds using linkage maps
- Assembly canu
- Assembly miniasm
- Assessing quality of genome assembly
- Assessing quality of transcriptome assembly
- Biological material
- canu_command
- Checkpoint: genome assembly answers
- Checkpoint: genome assemnly
- Checkpoint: Post assembly steps
- Checkpoint: reads extraction
- Checkpoint: sequencers
- Checkpoint: sequencers answers
- Checkpoint: Transcriptome
- Checkpoint: transcriptome assembly
- Choice of assembler
- Compare the experiemental transcripts to the reference annotation
- Comparison to the reference transcriptome
- completeness metrics
- contamination
- continuity metrics
- Contributors
- Experimental design
- File organization
- Genome assembly
- Introduction
- Learning objectives
- MinION HDF: fast5
- MinION: error correcting 2D reads with Canu
- Oxford Nanopore Technologies: MinION
- PacBio HDF: h5
- PacBio: the Iso Seq pipeline
- Pacific Biosciences: RSII
- polishing
- Post assembly steps
- Practical Information
- Read extraction
- reference based metrics
- Run docker image
- Schedule
- Transcriptome assembly: introduction
- Unix: useful tips