Comment on "REAPR: a universal tool for genome assembly evaluation"
...nute. The next tool we need is reapr smaltmap which creates a bam file of read-pair mappings. D...ctmap and create an output file called <assembler>_smalt.bam. This should take about twent...1381 days ago
1564 days ago
Comment on "Nanopolis: polish a genome assembly"
...ont2d -t 8 draft.fa reads.fa | samtools sort -o reads.sorted.bam -T reads.tmp - samtools index reads.sorted.bam python nanopolish_makerange....ensus -o polished.{1}.vcf -w {1} -r reads.fa -b reads.sorted.bam -g draft.fa -t 4 --min-candid...2143 days ago
2181 days ago
2975 days ago
Comment on "Alignment of closely related whole genomes/scaffolds"
...o used BWA-SW, BLAT and LASTZ. However, LASTZ is not well-suited for aligning to many chromosomes at once. Whereas, the BLAT is difficult as PSL to BAM conversion is imperfect in it...3063 days ago