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CRISPR systems are classified into types based on which *cas* genes they have. The current [classification system](http://dx.doi.org/10.1038/nrmicro3569) (ping me for pdf) divides CRISPR systems into …
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Hi! Thank you, the analytical workflow you provided is amazing and the most streamlined I could find for GESTATALT-like methods analysis.
I was just wondering at which point in the pipeline script yo…
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Hello!
I just had a quick question. Looking through the documentation I am a little unclear if knock-knock can be used to analyze CRISPR NGS data generated using multiplexed PCR (e.g. multiple ampl…
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**Analysis of tested guide RNA’s used for gene editing via CRISPR to predict optimal future guide sequences**
Despite the apparent simplicity of this sequence matching strategy to target the CRISPR…
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@rasi, @gquarter has generated some results from her GO analysis using the splicing CRISPR screen data, see [here](https://cbl-gorilla.cs.technion.ac.il/GOrilla/zctdtiao/GOResults.html). Do you have a…
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Right now the paired counts are inner joined (the default behavior of `merge`).
https://github.com/sheltzer-lab/crispr-screening/blob/1a6f8c1cbe94433e4abfc02d47247ba92c21ade4/bin/extract-reads.py#L…
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Hello,
thanks for develop these tools.
I just have 1 questions:
how to extract full-length L1 from the GTF you build (https://labshare.cshl.edu/shares/mhammelllab/www-data/TEtranscripts/TE_G…
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From: Anne Carpenter
Date: Fri, Dec 1, 2023 at 2:44 PM
Hi Ardigen/Ksilink,
Using this attached plot from Ardigen of the top 25 most anti-correlated pairs, I saw MYT1-RNF41.
So, I found someon…
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Cluster of RAB40B and XLOC_I2_008134 have the opposite phenotypes of a cluster of PIK3R3 and INSYN1 - googled most connections and got nothing so it may be novel.
Emailed Scott Soderling Duke Dec 1 h…
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Here is the updated list they provided Dec 15 2023.
We are generally interested to find gene pairs where:
- there is a strong Cell Painting ORF pos or neg correlation (column E: ORF_similarity_ab…