Question: single cell sequencing datasets batch effect
gravatar for aarvaBioinfo
2.0 years ago by
aarvaBioinfo10 wrote:

hi all, I have 3 single cell sequencing datasets from different year and in the form of cell ranger output files as barcode.tsv, gene.tsv and matrix.mtx files for each sample then how can i remove batch effect from them for gene expression analysis. is anyone have experience for this ?

R • 1.0k views
ADD COMMENTlink modified 13 months ago by Mark800 • written 2.0 years ago by aarvaBioinfo10

i have the same issue, would you please give me some suggestions? which software do you use? can you integrate different single cell datasets together?

thanks in advance xia

ADD REPLYlink written 13 months ago by 8977761770
gravatar for Mark
13 months ago by
Mark800 wrote:

There are several tutorials and packages found online

There is BEER

There are more software found here:

ADD COMMENTlink written 13 months ago by Mark800
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1842 users visited in the last hour