Binnerman

The SBML file is not valid: weird details

Dear all, I have a question regarding the command line when handling pe reads: run_MaxBin.pl -contig mycontig -reads myreads -reads2 my2ndreads -reads3 my3rdreads ... -out myout For this command line, should I feed MaxBin with "interleaved paired-end" reads? instead of two files forward and reverse. Or should I put the forward reads in -reads and the reverse reads in -reads2 and so on? I have 4 samples (same material but from different time points) for the binning, and therefore 8 files (forward...

Dear all, I have a question regarding the command line when handling pe reads: run_MaxBin.pl -contig mycontig -reads myreads -reads2 my2ndreads -reads3 my3rdreads ... -out myout For this command line, should I feed MaxBin with "interleaved paired-end" reads? instead of two files forward and reverse. Or should I put the forward reads in -reads and the reverse reads in -reads2 and so on? I have 4 read samples for the binning, and therefore 8 files (forward and reverse). Best and thanks, binnerman

Dear all, In the CAMI challenge paper: https://www.nature.com/articles/nmeth.4458 your tool is described as a "genome binner using tetranucleotide frequencies" (suppl. table 1) while all the other binning tools are also described as multiple sample coverage binners. The autors claim that they we running Metawatt with standard parameters, but since they do not consider Metawatt as a multiple coverage binners I do not know if they made use of this feature or they were just binning contigs by composition...