Hello! I am new using SGA for de novo assembly, I used this program wrapped in BaseSpace Illumina Platform.
I expected the kmer coverage information will be posted in contigs headers like in other programs, but this information is missing and even, in scaffolds file, the scaffolds headers only say "scaffold-1, scaffold-2". And in the log file, I find kmer count as general information but not per contig or scaffold in the final assembly.
I would appreciate any help about how to get this information. Thank you in advance.
I have Illumina Miseq paired-end reads for a bacteria genome of about 5 Mb.
I expected the kmer coverage information will be posted in contigs headers like in other programs, but this information is missing and even, in scaffolds file, the scaffolds headers only say "scaffold-1, scaffold-2". And in the log file, I find kmer count as general information but not per contig or scaffold in the final assembly.
I would appreciate any help about how to get this information. Thank you in advance.
I have Illumina Miseq paired-end reads for a bacteria genome of about 5 Mb.