Maq: Mapping and Assembly with Quality
...It builds assembly by mapping short reads to reference sequences. Maq is a project h...ow these steps to try Maq. All you need is a reference sequence file in the FASTA fo...or to the same directory. Simulate diploid reference and read sequences, map reads...2735 days ago
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Standardized velvet assembly report
...ggplot2 (from R prompt type install.packages("ggplot2","proto","xtable")) Perl Optional: BLAT or BLAST (to generate alignments against a reference genome). If using BLAT, add f...2718 days ago
BIMA V3: an aligner customized for mate pair library sequencing
...d for detecting genomic structural variants and chromosomal abnormalities. Unfortunately, the mapping and alignment of mate pair read pairs to a reference genome is a challenging and t...2713 days ago
e-RGA: enhanced Reference Guided Assembly of Complex Genomes
...eads. In this paper, we propose a novel method that aims to improve de novo assembly in the presence of a closely related reference. The idea is to combine de novo and reference-guided assembly in order to o...2708 days ago
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