Open rezarahman12 opened 1 year ago
Hi Reza (tagging you here @rezarahman12),
I suppose you downloaded HEK293T-WT-rep1 from Zeno do, which is HEK293T-WT-Rep2 from the SG-NEx project.
Here is the link to the difmod.table
HEK293T-WT-rep2 and HEK293T-Mettl3-KO-rep2 we generated:
https://drive.google.com/file/d/1hGuTEiXOz7H8PuKpJ-teOhkkcYDgaUeH/view?usp=sharing
You can obtain the majority_direction_kmer_diffmod.table
by
xpore xpore postprocessing --diffmod_dir [directory with the diffmod.table]
Thanks!
Best wishes, Yuk Kei
Hi @yuukiiwa ,
I noticed you said the HEK293T-WT-REP1 was from the SG-NEx project. May I ask if all the HEK293T wildtype replicates are from the SG-NEx project? If so, could you tell me the corresponding ID for all the WT REPs? As I downloaded the raw data of HEK293T-WT-REP2, and HEK293T-Mettl3-KO-rep2.tar.gz in SRA but there's something wrong with the uncompressing process. I am thinking about using the data in the SG-NEx project instead.
Dear xPore team,
I have run xpore on HEK293T-WT-rep1 and HEK293T-Mettl3-KO-rep1.
I wish to compare my output diffmod.table and majority_direction_kmer_diffmod.table files with yours.
Could you share the raw xpore results (diffmod.table and majority_direction_kmer_diffmod.table) of HEK293T-WT-rep1 (KO vs. WT)?
I appreciate your time and help. Kind regards Reza