User: Morris_Chair

gravatar for Morris_Chair
Morris_Chair170
Reputation:
170
Status:
Trusted
Location:
Last seen:
4 days, 16 hours ago
Joined:
2 years, 8 months ago
Email:
p********@operapadrepio.it

Posts by Morris_Chair

<prev • 154 results • page 1 of 16 • next >
0
votes
0
answers
80
views
0
answers
Linking SEURAT to DiffusionMAP
... Hello everyone, I used SEURAT for scRNA-seq analysis from where I generated different clusters in UMAP plot. Next, I want to do the diffusion mapping to see which cluster have a central core. The library that I m using is called destiny and the code is this: dm_guo <- DiffusionMap(guo, ve ...
scrna-seq rna-seq seurat written 5 weeks ago by Morris_Chair170
1
vote
1
answer
161
views
1
answers
Answer: C: What is MSTRG?
... Hi Arabi, MSTRG it's a way that stringtie uses to assign the gene names and isoforms, I went though this time ago and if I remember right I fixed this problem by using a different annotation file (GTF) ...
written 5 weeks ago by Morris_Chair170
1
vote
2
answers
169
views
2
answers
Comment: C: SEURAT scRNA-seq and library contribution for each cluster
... Hi Amjass, thank you very much for the code it worked perfectly fine, awesome !! :) ...
written 5 weeks ago by Morris_Chair170
0
votes
2
answers
169
views
2
answers
Comment: C: SEURAT scRNA-seq and library contribution for each cluster
... Thank you Jared.andrew for the answer, I was not able to install the package that includes dittoBarPlot case requires an upgrade version of R, but I solved the problem anyway ...
written 5 weeks ago by Morris_Chair170
0
votes
0
answers
149
views
0
answers
Comment: C: markers to define a cell population in a single UMAP
... ok sorry I was not clear, I don't have to make a UMAP only using three genes but I want to show where the cells that express this genes are located. For example if I have three population of cells in the UMAP and the population 2 is A+ B- C+, I want to show cells A+ and C+ instead of two separated ...
written 5 weeks ago by Morris_Chair170
0
votes
0
answers
149
views
0
answers
Comment: C: markers to define a cell population in a single UMAP
... Hi ATpoint, I want to make a new clustering with all cells based on three selected genes. Thank you ...
written 5 weeks ago by Morris_Chair170
1
vote
0
answers
149
views
0
answers
markers to define a cell population in a single UMAP
... Hello guys, I'm doing single cells analysis using Seurat pipeline and after the cluster distribution (UMAP) I found markers unregulated and downregulated in each of them. I want to know if it's possible to define in a single UMAP plot a specific cluster by including or excluding specific markers ...
scrna-seq rna-seq seurat written 5 weeks ago by Morris_Chair170
5
votes
2
answers
169
views
2
answers
SEURAT scRNA-seq and library contribution for each cluster
... Hello Everyone, I'm analyzing three replicates samples with Seurat pipeline and I made clusters in UMAP. I wanted to ask you if it's possible to know what is the contribution of each samples in terms of percentage for each cluster, I know R is capable of everything but I don't know how to code it, ...
rna-seq written 5 weeks ago by Morris_Chair170 • updated 5 weeks ago by amjass20
0
votes
1
answer
228
views
1
answers
Comment: C: scRNA-seq reduction plot for individual group
... thank you Arup it worked :) ...
written 6 weeks ago by Morris_Chair170
0
votes
1
answer
228
views
1
answers
Comment: C: scRNA-seq reduction plot for individual group
... I'm using three files received from 10X already processed with cellranger so the libraries are merged together in a unique data.frame prior loading in R. I'm following the Seurat pipeline and to distinguish cells of each libraries I'm first taking the last number after the UMI library <- su ...
written 7 weeks ago by Morris_Chair170

Latest awards to Morris_Chair

Popular Question 25 days ago, created a question with more than 1,000 views. For Bamfile first step analysis
Popular Question 10 weeks ago, created a question with more than 1,000 views. For Bamfile first step analysis
Popular Question 12 weeks ago, created a question with more than 1,000 views. For Bamfile first step analysis
Popular Question 4 months ago, created a question with more than 1,000 views. For Bamfile first step analysis
Centurion 7 months ago, created 100 posts.
Supporter 11 months ago, voted at least 25 times.
Popular Question 12 months ago, created a question with more than 1,000 views. For Bamfile first step analysis

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1460 users visited in the last hour