Greenleaflab/archr
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 WebOct 11, 2024 · ArchR-createArrows-6dde1096a29b-Date-2024-10-11_Time-13-52-12.log Hello, I am trying to run through the tutorial data set and have run into an error where …
Greenleaflab/archr
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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 …
WebArchR 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 … WebMay 25, 2024 · GreenleafLab / ArchR Public Notifications Fork 93 Star 276 Code Issues 15 Pull requests 9 Discussions Actions Projects Security Insights New issue addGeneIntegrationMatrix error #174 Closed Brawni opened this issue on May 25, 2024 · 8 comments Brawni commented on May 25, 2024 • edited
WebLove Archr. I went through the entire pipeline with my multiome paired scRNAseq and ATACseq data on 11 different samples. Now I have clusters and UMAPs generated via LSI-combined and harmony and I would like to run cellchat on them. But I have no idea how to extract the RNAseq seurat object from my Archr Project. WebJun 6, 2024 · GreenleafLab / ArchR Public. Notifications Fork 95; Star 282. Code; Issues 15; Pull requests 9; Discussions; Actions; Projects 0; Security; Insights; Getting …
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 ArchR-getMatrixFromProject-1bfab75719cfea-Date-2024-04-14_Time-05-37-50.log...
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") … diamond state truckingWebOct 14, 2024 · #' @param db A string indicating the database or a path to a database to use for peak annotation. Options include ArchR, #' LOLA, and a valid path to a file of class … cisco wifi management softwareWebJun 19, 2024 · Originally I thought there is something wrong with the dataset, but my PI's code works, and at the same time, the ArchR code works fine on the Tutorial dataset under current Conda environment. By the way, I used ArchR in Conda environment on HPC. The following is the sessionInfo(). Maybe, I should make a new ArchR only Conda … diamond staton-williams harrisburg ncWebLove Archr. I went through the entire pipeline with my multiome paired scRNAseq and ATACseq data on 11 different samples. Now I have clusters and UMAPs generated via … cisco wifi mesh networkWebJan 30, 2024 · ArchR has a built-in logging functionality for all complex functions. You MUST attach your log file (indicated in the console output) to this issue. Just drag and … cisco wifi microwave interferenceWebJul 20, 2024 · ArchR logging to : ArchRLogs/ArchR-getMarkerFeatures-c733ad6d8bf-Date-2024-01-04_Time-05-28-14.log If there is an issue, please report to github with logFile! 2024-01-04 05:28:14 : Matching Known Biases, 0.001 mins elapsed. diamond station bracelet in 14k yellow goldWebMar 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. diamond state port corporation board