Request for xpore result of HEK293T-rep1

[rezarahman12]

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

[yuukiiwa]

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

[loganylchen]

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.