dudcha

Hello Min, If you are using haploid and not diploid mode there should not be any sequence removed, regardless of size. If you are running diploid the total number of...

Hello wuxiaopei0509, How big is your assembly file? If it is very large (>Mb) consider bundling. Read about bundling in Genome Assembly Cookbook (dnazoo.org/methods). Best, Olga

Please check your ask version. It should be at least 4.0.2. Best, Olga > On Feb 12, 2019, at 3:17 AM, shimiao12345 wrote: > > Hi , > I ran...

Most likely your original fasta is not wrapped, i.e. all sequences are listed in a single line. Use 3d-dna/utils/wrap-fasta.awk to wrap you draft and pass that as input into appropriate...

Hello Xinghua, This appears to be a completely unrelated problem. The error is right there in the message you have sent: the contact matrix did not normalize at 25kb resolution....

Hi Fwlei123, The error means that splitting into chromosomes failed. The easiest would probably be to split manually in JBAT if you are plannning to do revisions anyway. You'll see...

Hi, Make sure that your merged_nodups was generated with the right fasta reference and that you have permissions to read the files. Based on the messages either 1) the headers...

Changing of normalization refreshes the AllByAll map.

Hi, please check the aidenlab.org/forum.html, e.g. https://groups.google.com/g/3d-genomics/c/PrvpO4EnBB4/m/sWFk0UCBCwAJ > On Mar 30, 2022, at 10:53 PM, Jwindler ***@***.***> wrote: > > > Hi, i want to know the detail information about...

Hi Earl, Sorry for delay, was traveling. Can you please clarify if you are running in haploid or diploid mode? Thanks, Olga