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Hi I am pretty new to kallisto/bustools so thank you for your help in advance. I followed directions from this issue/Google collab: [Issue #75](https://github.com/BUStools/bustools/issues/75)
I ra…
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Hello.
I want to use EquiPNAS to check my TF bing sites (picked up from RNA seq experiment).
After creating the environment with conda, I downloaded the published models and tested the operation.…
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Hi,
I have paired-end (2X100) RNA-seq data of variable post-trimmed length (2X36-100nt). For a good fraction of samples, I am getting very low uniquely mapped reads % and very high% of reads to mult…
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I have a relatively large bulk RNA seq dataset (~ 1300 samples, from ~70 experiments) that I'd like to correct for significant batch effects. Is it valid/possible to apply BERMUDA to my dataset? Inste…
mdanb updated
3 years ago
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Literature reference: https://www.genome.gov/genetics-glossary/Kilobase
Please include the unit kilobase (kb)
A kilobase (abbreviated kb) is a unit of measurement used to help designate the leng…
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Hello, I didn't find the visualization code in your repo. Your paper alse didn't mention reference for visualization. Could you tell me how to plot the RNA secondary structure figures.
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### Description of feature
This issue is to provide an overview of different tools and related sub-issues related to supporting multiple modalities:
- CITE-seq (=RNA+protein) (https://github.co…
grst updated
4 months ago
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Hello,
Could you please let me know where I can get the input files: 904_3_V3.guide_barcode_reads.txt or K562 guide RNA cell identifies (https://www.sciencedirect.com/science/article/pii/S00928674…
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I am wondering if it is possible to use an index built from just fasta files containing the gRNAs used in single cell pooled CRISPR screen. I can quantify gene counts using STARsolo. But if I try to u…
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Dear akdess:
I have some problems about bulk RNA-seq data.
1. Is there a limitation with the sample size? how many samples does it work well at least?
2. If I have more than one cohort from public …