User: d.depledge

gravatar for d.depledge
d.depledge • 0
Reputation:
0
Status:
New User
Last seen:
an hour ago
Joined:
2 years, 11 months ago
Email:
d*********@ucl.ac.uk

Profile information, website and location are not shown for new users.

This helps us discourage the inappropriate use of our site.

Posts by d.depledge

<prev • 6 results • page 1 of 1 • next >
0
votes
0
answers
31
views
0
answers
Comment: C: GVIZ stacking error
... While the first problem is resolved - here is a second one using this simple GFF3 \##gff-version 3 \##sequence-region Ad5 1 35938 Ad5 RefSeq gene 4057 5836 . - . ID=gene.IVa2;Name=gene.IVa2 Ad5 RefSeq mRNA 4057 5836 . - . ID=mRNA.IVa2;Parent=gene.IVa2;Name=IVa2;class=late Ad5 RefSeq ...
written 2 hours ago by d.depledge • 0
0
votes
0
answers
31
views
0
answers
Comment: C: GVIZ stacking error
... As it happens I have managed to solve the problem. The curiosity is that the error was solved simply by renaming a gene (and it's associated mRNA) from pics -> vex. Interestingly, I could replicate this error (or variations thereof) by changing any of my gene names to anything starting with 'pi. ...
written 5 hours ago by d.depledge • 0
0
votes
0
answers
31
views
0
answers
GVIZ stacking error
... Hi, I'm using GVIZ with a custom built GFF3 file and am getting some curious artifacts in my output plot. The main issue is the false incorporation of an exon into a multi-exon unit (right side of image). Here the red hatched box shows the exon which should stand alone at the position indicated ...
gviz written 1 day ago by d.depledge • 0
0
votes
1
answer
391
views
1
answers
Comment: C: Differential Expression analysis between distinct scRNA-seq datasets
... Thanks for the comments - I've been looking at MAST and I think this might well suit my requirements.. Your point about cluster labels being data-driven is well taken and I will have to think carefully about interpretation. As for a confounded design, it is more the case of a poorly written descri ...
written 21 months ago by d.depledge • 0
1
vote
1
answer
391
views
1
answer
Differential Expression analysis between distinct scRNA-seq datasets
... I have two scRNA-seq datasets, both derived from a heterogeneous population of cells (comprising similar numbers of cell types and subpopulations). One sample has been treated with a drug, the other has not. While I can separate out the cellular subpopulations in each dataset, what I want is to then ...
differential gene expression scrna scrnaseq written 21 months ago by d.depledge • 0 • updated 21 months ago by davide risso • 830
0
votes
0
answers
321
views
0
answers
Gviz Alignments Track - RNASeq data
... I'm using GViz to visualize RNASeq data using AlignmentsTrack. I have lots of reads that are spliced across two or more exons (this is long read RNASeq data). However, I am getting an error when providing a character vector of CIGAR values associated with the alignment. "Error in .fillWithDefaults( ...
gviz written 2.9 years ago by d.depledge • 0

Latest awards to d.depledge

No awards yet. Soon to come :-)
Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 249 users visited in the last hour