pabloacera
pabloacera
I am running xpore-diffmod with a reasonably large files and I get this error in the middle of the execution. Have you seen this error before? ``` [pm1122@gadi-hmem-clx-0013 WT2_RNAAB056712]$ /home/249/pm1122/raijin_home_2019-11-15/pm1122/lib/bin/xpore-diffmod...
I was wondering if xpore will work for (SQK-RNA001) dRNA sequence kit. Would it be any reasons to not work?
Hi @ploy-np thanks for the tool, it works really well! In the output: ``` id,position,kmer,diff_mod_rate_KO_vs_WT,pval_KO_vs_WT,z_score_KO_vs_WT,mod_rate_KO-rep1,mod_rate_WT-rep1,coverage_KO-rep1,coverage_WT-rep1,mu_unmod,mu_mod,sigma2_unmod,sigma2_mod,conf_mu_unmod,conf_mu_mod,m ENST00000273480.3,355,CTGTG,-0.08347772875845261,0.00045545433099164034,-3.505673042879497,0.9165081871312406,0.9999859158896932,135.00000000000003,71.0,99.48265403939226,104.17836035668046,28.4052619532913 ENST00000273480.3,593,CGATG,0.3427671649567362,7.343327455223234e-07,4.952056501330644,0.7507215520963253,0.4079543871395891,145.0,69.0,117.18091740473061,124.27790948192207,30.599099884885668,8.92729375396 ``` If i'm not wrong, every line gives information per site right? I...
Hi, Thanks for the useful tool. I was wondering if prepare_mapped_reads.py script does a similar thing as tombo resquiggle does. Is it assigning chunks of signals to nucleotides? please, How...
I'm using R version 3.4.4 (2018-03-15), Hmisc package Hmisc_4.1-1 I want to use cut2 to bin a list of number (x) based on the number of occurrences of these numbers....
Hi, Please, I would like to know if the dRNA produced by DeepSimulator would contain RNA modifications. I guess that it would depend if the training datasets for dRNA contained...
Hi, Thanks for making the model available. I have been playing with the model and realized that usually when making prediction of a sequence of DNA, usually the last token...