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Hi there!
I've been working with SOAPdenovo2 quiet a while now.
For some extra researches, I took a closer look on the outputfile with the scaffolds and singeltons.(.scaffseq)
When i was looking an the file with a few commands, i received 6.935 bases-diffrent between the singelton-results of SOAPdenovo2 and what i calculated and 111 basesdifference between the scaffold numbers.
I ran and checked the commands with a few testdatasets, so from my point of few they are correct.
Does anybody knows how excatly SOAP-denovo2 calculates the total scaffold length? With and without singeltons?
Did anyone of you already did some similar researches and could help me to understand how SOAPdenovo does the calculation?
Best regards,
Petrichor
I've been working with SOAPdenovo2 quiet a while now.
For some extra researches, I took a closer look on the outputfile with the scaffolds and singeltons.(.scaffseq)
When i was looking an the file with a few commands, i received 6.935 bases-diffrent between the singelton-results of SOAPdenovo2 and what i calculated and 111 basesdifference between the scaffold numbers.
I ran and checked the commands with a few testdatasets, so from my point of few they are correct.
Does anybody knows how excatly SOAP-denovo2 calculates the total scaffold length? With and without singeltons?
Did anyone of you already did some similar researches and could help me to understand how SOAPdenovo does the calculation?
Best regards,
Petrichor