Greenleaflab/archr

Author: nrlz

August undefined, 2024

WebAug 13, 2024 · Hello, I am trying to export the peaks by cells accessibility matrix for external use, but when I use getMatrixFromProject the number of cells is much fewer than the … WebGreenleafLab / ArchR Public. Notifications Fork 95; Star 282. Code; Issues 15; Pull requests 9; Discussions; Actions; Projects 0; Security; Insights Getting tile matrix ... I …

addGeneIntegrationMatrix: Error in h5read(ArrowFile, …

WebArchR: An integrative and scalable software package for single-cell chromatin accessibility analysis (Granja JM*, Corces MR*, et al. 2024) Link : … WebJul 27, 2024 · Yes - ArchR works for ATAC and RNA data acquired from different cells (see the manual) as well as the newer multiome approaches. Our expectation is that you … ircc official travel

ERROR in addReproduciblePeakSet(） · Issue #413 · GreenleafLab/ArchR

WebJul 27, 2024 · Yes - ArchR works for ATAC and RNA data acquired from different cells (see the manual) as well as the newer multiome approaches. Our expectation is that you process your RNA-only data outside of ArchR (for ex. with Seurat) and then use that object as import to ArchR. 1 0 replies Sign up for free to join this conversation on GitHub . WebHello, I copy the ArchR output to another computer, while plotEmbedding function does not work due to the working directory sorted in ArchR object. WebJul 12, 2024 · GreenleafLab / ArchR Public Notifications Fork 95 Star 281 Code Issues 15 Pull requests 9 Discussions Actions Projects Security Insights implementation of seurat … ircc offices in toronto

createArrowFiles has encountered an error, checking if any

Error in getMatrixFromProject: "Error in …

WebNov 30, 2024 · Extract peaks from each subsetted ArchR projects as .bed file. Subset for each cell type. Call peaks on subsetted dataset with Macs2. Extract peaks from each … WebJul 5, 2024 · Version. 1.0.2. Package repository. View on GitHub. Installation. Install the latest version of this package by entering the following in R: install.packages ("remotes") … ircc old portalWeb5 hours ago · GreenleafLab / ArchR Public. Notifications Fork 96; Star 284. Code; Issues 18; Pull requests 9; Discussions; Actions; Projects 0; Security; Insights ... , reducedDims … order confirmation quickbooks

"WebGreenleafLab / ArchR Public Notifications Fork 93 274 Actions Projects Error in H5Fopen (file): Unable to open HDF5 file when using subsetArchRProject to create new arrow files JohnGenome opened this issue on Jul 16, 2024 · 26 comments JohnGenome commented on Jul 16, 2024 " - Greenleaflab/archr

Greenleaflab/archr

WebJun 6, 2024 · GreenleafLab / ArchR Public. Notifications Fork 95; Star 282. Code; Issues 15; Pull requests 9; Discussions; Actions; Projects 0; Security; Insights; Getting … WebOct 17, 2024 · GreenleafLab / ArchR Public Notifications Fork 95 Star 282 Code Issues 16 Pull requests 9 Discussions Actions Projects Security Insights New issue ArchR object …

Did you know?

WebAug 10, 2024 · GreenleafLab / ArchR Public Notifications Fork 93 Star 279 Code Issues 15 Pull requests 9 Discussions Actions Projects Security Insights New issue Error in H5Fopen (file): HDF5. File accessibilty. Unable to open file #972 Closed brianpenghe opened this issue on Aug 10, 2024 · 9 comments brianpenghe commented on Aug 10, 2024 completed WebApr 10, 2024 · Teams. Q&A for work. Connect and share knowledge within a single location that is structured and easy to search. Learn more about Teams

WebOct 5, 2024 · ArchR logging to : ArchRLogs/ArchR-getMarkerFeatures-ea792557637e-Date-2024-09-15_Time-19-21-01.log If there is an issue, please report to github with logFile! 2024-09-15 19:21:02 : Matching …

WebSep 28, 2024 · I am using my dataset for ArchR analyses. These are scATAC seq dataset. I am able to run through the initial steps of creation of arrow files but it seems to be stuck at "Creating ArrowFile From Temporary File 9.113 mins elapsed" for over two hours. WebAug 13, 2024 · Hello, I am trying to export the peaks by cells accessibility matrix for external use, but when I use getMatrixFromProject the number of cells is much fewer than the number of cells in my ArchR project. I used the following code to call peaks and extract the matrix, and I included the log file for my getMatrixFromProject call.

Web4 hours ago · I noticed that when I used the getMatrixFromProject function, there was a problem about HDF5. The following is the detailed related content: Attach your log file …

WebMar 4, 2024 · Describe the bug I am unable to get exactly the same Arrow files when using BAM and fragment file inputs from the same data set. For example, using the possorted_bam output from 10x and the fragments.tsv.gz output from 10x give different pass-filter cells and different fragment counts. ircc onipWebArchR is a full-featured R package for processing and analyzing single-cell ATAC-seq data. ArchR provides the most extensive suite of scATAC-seq analysis tools of any software … order confirmation request smartsheet.comWebJan 16, 2024 · In the creation of pseudobulk replicates, it can happen in a sample-aware manner, which is great. However, it seems like in certain cases where minCells per … order confirmation platformWebI'm continuously try to set-up and understand the data analysis workflow using ArchR. During following "full tutorial", I got question. After calculating gene scores, how can I … ircc official email addressWebNov 10, 2024 · GreenleafLab / ArchR Public. Notifications Fork 96; Star 284. Code; Issues 15; Pull requests 9; Discussions; Actions; Projects 0; Security; Insights New issue Have a question about this project? ... ArchR logging to : ArchRLogs/ArchR-addReproduciblePeakSet-a325acb7b94-Date-2024-11-10_Time-17-01-14.log If there is … ircc onboardingWebI think I safely installed ArchR, and confimed that ArchR is running safely in R command line. But when I run the ArchR package in rstudio, "WARNING : Cairo check shows … ircc online applicationWebArchR logging to : ArchRLogs/ArchR-addGeneIntegrationMatrix-11f6561f7d62-Date-2024-09-29_Time-12-16-33.log If there is an issue, please report to github with logFile! 2024-09-29 12:16:33 : Running Seurat's Integration Stuart* et al 2024, 0.002 mins elapsed. order confirmation scams