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The ORGanelle ASeMbler
¶
Contents:
Installing
the ORGanelle ASeMbler
Availability of
the ORGanelle ASeMbler
Prerequisites
Downloading and installing
the ORGanelle ASeMbler
System level installation
Retrieving the sources of
the ORGanelle ASeMbler
Compiling and installing
the ORGanelle ASeMbler
The ORGanelle ASseMbler principles
Sequencing strategy: Low-coverage shotgun sequencing of genomic DNA
The assembly graph
The ORGanelle ASseMbler commands
The file formats
The
fasta
format
The
fastq
sequence format
The ENA flat-file format
Assembling a mitochondrion genome with
the ORGanelle ASeMbler
Step 1 : indexing the reads
Step 2 : Building the assembling graph
Step 3 : unfolding the graph to get the sequence
The ORGanelle ASeMbler algorithmns
Seed selection
Graph extension
Graph cleanning
Gap filling
Graph unfolding
Indices and tables
¶
Index
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Table of Contents
The ORGanelle ASeMbler
Indices and tables
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