ComBat-seq

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I want to coumbine 2 different datasets for RNA seq analysis however the Control on each datasets are different so there is no commvon samples between them can I still...

ucbtsh6

The covariates are confounded

3

Dear @zhangyuqing , creator of ComBat-seq, for experimental reasons, I was trying to run ComBat-seq on only two batches of the GFRN dataset you provided. I cropped the matrix accordingly...

SimonSchlumbohm

I'm working with smallRNA data and performed batch control with Combat_Seq (bioconductor version). I used the below command - ``` library('sva') corrected_batch

kvn95ss

Hi， I hope to apply ComBat_seq to my microbial otu table, my table has 214 cols and 6663 rows, but when I put it in the command below it return...

Chenjlin28

A strange problem

1

Hello! Now I meet a strange problem. My desktop broken so I reinstalled the R package, before I reinstalled, I use combat_seq can get the The processed matrix, but now...

zonzero

Hi, I utilized ComBat-Seq for a meta-analysis of 200 RNA-Seq datasets, and it delivered exceptional results! However, a question arises: what if I have additional projects to incorporate into the...

woodyNsinbad

Hi @zhangyuqing, I have RNAseq data from 3 batches: c("3", "1", "2", "1", "2") but batch3 only has one sample. When running ComBat_seq, it gives error: Can I ask if...

jianwu1

Hi I have been working with combat-seq for a little while, where I quantify with kallisto, import with tximport, load to deseq2 to get "raw" counts, then run combat-seq on...

pintoa1-mskcc

I have 2 batches, batch 1 having 4 samples (normal tissue) and batch 2 having 8 samples (normal tissue). These 2 batches are different in library size preparation (one is...

Mercilena