Comments (2)
Hi @ChaseWLW , thanks for showing your interest in the data resource.
Yes, we do have plans to include data generated using the RNA004 kit for future releases. Stay tuned for our data updates that will come soon in the coming months!
You can also sign up for the sg-nex-updates email list to receive notifications about upcoming data releases here.
Thank you
Warm Regards,
Ying
from sg-nex-data.
Hi @cying111
I have downloaded your released RNA004 reads for HEK293T cell: SGNex_Hek293T_directRNA_replicate5_run1.pod
I have a quick inspection of the data, and here is the returned information for one of the read:
read_id: 0fa7ea06-e289-427f-b256-e19f7203eecb
read_number: 201251
start_sample: 593522006
median_before: 206.00022888183594
channel data:
channel: 703
well: 3
pore_type: not_set
end reason:
name: signal_positive
forced: False
calibration:
offset: -276.0
scale: 0.1462070643901825
samples:
sample_count: 147018
byte_count: 152006
compression ratio: 0.517
run info:
acquisition_id: aae2b73c2c106865c1fca563d17a64cc12adeb2c
acquisition_start_time: 2023-04-10 03:01:45.033000+00:00
adc_max: 2047
adc_min: 0
context_tags: {'barcoding_enabled': '0', 'experiment_duration_set': '4320', 'experiment_type': 'genomic_dna', 'local_basecalling': '0', 'package': 'bream4', 'package_version': '7.4.8', 'sample_frequency': '4000', 'sequencing_kit': 'sqk-rna002'}
experiment_name:
flow_cell_id: PAO51086
flow_cell_product_code: FLO-PRO002
protocol_name: RNA004_scripts/RNA004_V1/sequencing_RNA004_V1_Prom:FLO-PRO002:SQK-RNA002
protocol_run_id: 08baabbd-672c-4fc8-b6b5-089bc197e110
protocol_start_time: 2023-04-10 02:55:57.844000+00:00
sample_id: HEK293T
sample_rate: 4000
sequencing_kit: sqk-rna002
sequencer_position: 3A
sequencer_position_type: promethion
software: python-pod5-converter
system_name: PC24A004
system_type: PRO-PRC024
So it seems the sequencing kit is still shown as "sqk-rna002", I just want to confirm that it's just an error in the meta information and this is the RNA 004 dataset.
from sg-nex-data.
Related Issues (19)
- Fast5 files HOT 3
- Data Release? HOT 2
- sample_id SGNex_MCF7-EV_directRNA_replicate2_run1 is duplicate HOT 1
- Questions about sequin used HOT 2
- questions about data accessions HOT 1
- Raw data in BLOW5 format HOT 10
- two fastq files were not correctly formated HOT 3
- Sequin spike-in reference HOT 4
- Identification of m6A with the SG-NEx samples HOT 1
- No download for fastq HOT 2
- Naming of samples HOT 2
- fast5 file unable to download now HOT 13
- Possible mixup of Illumina short read data Hct116 and HepG2
- Errors in the augmented annotation GTF file HOT 1
- Are there tissue samples available? HOT 1
- What kits were used for Nanopore library prep? HOT 2
- Number of PCR cycles HOT 2
- Short-read data HOT 3
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from sg-nex-data.