Redundans

I tried to run redundans which is running for almost 4 days. Is this is normal? When I add options

Hi All, I am getting the following error during the scaffolding step. I am not sure how to resolve

Hi All, I am planning to use Redundans for my genome assembly. However, I get the following error (

Ok, so it happens during long-read scaffolding. How big is your genome and data? Frankly speaking, I

Dear Kate, frankly I've never done AGP for redundans output. What you can try is to split your

Dear Leszek, Thanks for your fast repply. Yeah, I was suspecting that was a problem with the input

I've answered to previous email. L. --- The registration to #NGSchool2019: Machine Learning for

Hi, Thanks a lot for the report and solving the problem! :) Frankly, solving dependency issues is

Dear Mun, the identity of repetitive regions seems to peak ~.95, so if you set cut-off around that,

Hi Joe, Redundans doesn't assume any ploidy. It will reduce all heterozygous regions at given --

Hi Jesse, Honestly, I've never tried Redundans on microbiome data, but it can be an interesting

Just wanted to give a quick update, While I still haven't found the cause, this observation seems

Dear all, I've just pushed development branch of Redundans with new de novo assembly module. It

I'm really greatful, as one usually uses more complex test case and some unusual scenarios can

Dear Redundans users, Over last winter I've developed genome assembler for Hi-C libraries (https:

Thanks, I got it. Fuyou On Mon, Oct 2, 2017 at 11:51 AM, lppr...@gmail.com <lppr...@gmail.com

Hi, I was using long reads without correction. Last aligner is used for long reads and it was

Thanks! greetings from Warsaw! L. L. 2017-08-31 15:12 GMT+02:00 alexis groppi <agr...@gmail.com

Thank you very much for fixing this! It worked perfectly! How do you want me to send you the contig

Thank you! Le ven. 2 juin 2017 à 10:01, lppr...@gmail.com <lppr...@gmail.com> a écrit : the

I guess scaffolding step failed. Can you do `ls -lah` on output dir? Anyway, I've added function

Hi, Are you talking about initial assembly (from platanus) or assembly resulting from Redundans? The

Dear Sumitha, Thanks for interest in Redundans! I'm using Redundans to help improve some de novo

Difficult to say. Are you using SGE? Or running jobs directly? L. 2017-04-24 17:02 GMT+02:00 Fuyou Fu

Hi Fringy! Good to hear from you :) You can set insert size info by manually. If you somefile_R1.fq

Dear Leszek, Here is my input. Tell me if that's okay. Best regards Alexis Le jeu. 16 mars 2017 à

I found this old FAQ (thanks Google cache ;) ) : Redundans fails with OSError or maf-convert: not

Hi Leszek, Thanks for your answer. I have also Illumina reads produced on the same genome (about 16X

Hi Andrew, As you said, 77% is quite low, most likely many quite ancient duplications and repeats

Try reduced contigs (1G) right away. You can reduce scaffolds more (also to ~1G) ie identity 0.9. I