Taiji

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Hi, I currently have a network file and I just want to use it for the PageRank analysis. I noticed the `external_network: "pathway.tsv" `configuration. But I don't know what the...

rejo27

Hi, I am facing an error when trying to run taiji on my RNAseq and ATACseq data. Everything looks fine until the pipeline reaches the first ATAC_Make_BigWig step, and then...

MiguelJulia

Hi, I'm trying to install Taiji from the source code in our CentOS server using stack and I'm getting requested to give my github credentials during the installation: ``` [gascui@login02...

gabrielascui

taiji running problem

1

Hi kai, When using Taiji, I encountered some issues while using a YAML file as input. The error message I encountered is: there is my input.yml: ```python RNA-seq: - id:...

yuechaowu

Hi, I am running the QC part of taiji and encountered the following error: ------------------------------------------------------------------------------------------------ [INFO][11-12 23:23] SCATAC_Pre_Cluster(7e8b..): Running ... Read Data Use jaccard distance Compute similarity matrix Traceback (most...

youjingyuan

Taiji fails during RNA-seq read of quant data

1

Hi, I am currently trying to run Taiji on a set of WT and KO RNAseq and ATACseq data. To not mess with previous analyses I decided to use the...

dmalzl

Dear Taiji authors, Thanks for establishing this powerful tool for key TF network analysis. We have done the Taiji analysis for integrating ATAC-seq and RNA-seq recently, and we are confused...

YM-Chuang

31mATAC_Get_TFBS(83dd..) Failed: src/Bio/Data/Bed/Types.hs:(213,9)-(221,34): Non-exhaustive patterns in function go

3

Hello, I am using my own .bed file with NarrowPeaks and would like to use Taiji to get the TF ranking. The pipeline runs and I get the TFBS files...

AlisaOmel

Hello. I was wondering if Taiji works with CUTnRUN BroadPeak data alone. I was able to successfully run Taiji with ATAC-seq Narrow Peak data. I used the input.yml and modified...

AlisaOmel

Run Taiji on Cut&Run histone mark data

3

Hi Taiji author, Thanks for creating this useful tool for key TF identification! I have some general questions of running Taiji on RNA + histone marks. 1. I'm running RNA...

helenhuangmath