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GoekeLab / xpore

Identification of differential RNA modifications from nanopore direct RNA sequencing
https://xpore.readthedocs.io/
MIT License
132 stars 22 forks source link

Download datasets #47

Closed q1134269149 closed 9 months ago

q1134269149 commented 3 years ago

Hi, When I download the datasets from PRJEB40872 in NCBI, however, I found a lot of data missing, such as HEK293T-Mett3-KO-rep2, HEK293T-WT-rep2, HEK293T-WT-100-rep1, HEK293T-WT-50-rep1, HEK293T-WT-50-rep2, HEK293T-WT-50-rep3, HEK293T-WT-25-rep2 and so on. Will these missing data continue to be uploaded? In addition, is it convenient to add some descriptive information to the data? For example, what's the difference between data HEK293T-WT-100, HEK293T-WT-75, HEK293T-WT-50 and HEK293T-WT-25? Thank you! hqin

ploy-np commented 3 years ago

We are fixing these data links. Now, you can download the preprocess data files ,which are much smaller, via https://doi.org/10.5281/zenodo.4604945 and https://doi.org/10.5281/zenodo.4587661.

q1134269149 commented 3 years ago

We are fixing these data links. Now, you can download the preprocess data files ,which are much smaller, via https://doi.org/10.5281/zenodo.4604945 and https://doi.org/10.5281/zenodo.4587661.

Thanks. I want to download the native fast5 files of HEK293T-Mett3-KO-rep2 and HEK293T-WT-rep2. Can you provide the links for download, thank you. hqin

lwlive commented 3 years ago

In the beginning, I wanted to try xpore from the raw fast5 data, but I found that the fast5 files are 100 times bigger than the fastq files. Therefore I try to repeat the analysis from the eventalign.txt file. So could you kindly offer me tha eventalign.txt file with the email (lw_live@163.com).

jonathangoeke commented 3 years ago

Hi @lwlive can you post this to the discussion (as a separate entry from your other question)? We can reply there then. Thanks!