Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Profile
Posts
Awards
Show
all
questions
tools
blogs
news
tutorials
forum
answers
comments
Showing :
questions
0
votes
0
replies
117
views
How to do KEGG pathway analysis when I have a gene with multiple entrez IDs?
biomart
kegg
deseq2
2 days ago by
bioinfo
▴ 140
4
votes
2
replies
399
views
Does DESeq2 correct for library size when importing the counts with DESeqDataSetFromMatrix?
rna-seq
deseq2
updated 14 days ago by
i.sudbery
18k • written 15 days ago by
bioinfo
▴ 140
3
votes
7
replies
629
views
How much adapters is it ok to keep in my samples after RNA seq?
rna
adapters
illumina
seq
updated 17 days ago by
GenoMax
136k • written 21 days ago by
bioinfo
▴ 140
3
votes
4
replies
403
views
Why am I getting different results with kallisto?
kallisto
22 days ago by
bioinfo
▴ 140
2
votes
3
replies
272
views
Are truseq adapter sequences picked up by FASTQC?
fastqc
truseq
updated 25 days ago by
GenoMax
136k • written 25 days ago by
bioinfo
▴ 140
0
votes
0
replies
163
views
How to convert dataframe properly to anndata?
anndata
python
cell
single
5 weeks ago by
bioinfo
▴ 140
0
votes
0
replies
157
views
How to import filtered_tf_bc_matrix and add it to my anndata object?
anndata
python
atac
anndataset
5 weeks ago by
bioinfo
▴ 140
0
votes
0
replies
177
views
How to subsample ATAC fragment file?
single
cell
RNA
atac
seq
5 weeks ago by
bioinfo
▴ 140
0
votes
2
replies
359
views
Removing constant/zero columns for PCA?
R
pca
updated 7 weeks ago by
Mensur Dlakic
★ 25k • written 7 weeks ago by
bioinfo
▴ 140
1
vote
4
replies
478
views
How to assign gene names after kallisto when I add GFP?
tximport
RNA-seq
kallisto
6 weeks ago by
bioinfo
▴ 140
1
vote
8
replies
745
views
How to plot proportion of cells in each cluster with scanpy?
scRNA-seq
scanpy
single-cell
9 weeks ago by
bioinfo
▴ 140
5
votes
2
replies
453
views
How to calculate GC content of reads that mapped to a specific gene?
STAR
RNA-seq
12 weeks ago by
bioinfo
▴ 140
0
votes
8
replies
626
views
Can the DESeq2 object for paired data be set with design= ~ batch + condition?
rna-seq
deseq2
3 months ago by
bioinfo
▴ 140
1
vote
1
reply
346
views
Do I need to perform basic filtering before using scrublet?
scanpy
scrublet
updated 3 months ago by
GenoMax
136k • written 3 months ago by
bioinfo
▴ 140
0
votes
2
replies
468
views
How to choose threshold for scrublet?
rna-seq
scrublet
3 months ago by
bioinfo
▴ 140
0
votes
5
replies
542
views
Questions about per base sequence quality and GC content.
fastqc
fastq
seq
RNA
3 months ago by
bioinfo
▴ 140
3
votes
3
replies
488
views
How to assign gene names to ensembl IDs if species not in Biomart
biomart
ensembl
3 months ago by
bioinfo
▴ 140
0
votes
4
replies
598
views
Why do I need to sort and index gtf file for IGV?
igv
updated 4 months ago by
ATpoint
78k • written 4 months ago by
bioinfo
▴ 140
3
votes
3
replies
540
views
Where can I find the --chromosomes file for kallisto?
kallisto
updated 4 months ago by
GenoMax
136k • written 4 months ago by
bioinfo
▴ 140
3
votes
2
replies
435
views
How to figure out adapter sequences in RNA seq?
adapters
rna-seq
updated 5 months ago by
rfran010
▴ 880 • written 5 months ago by
bioinfo
▴ 140
1
vote
0
replies
310
views
How does kallisto genomebam handle multi mapping reads?
kallisto
updated 5 months ago by
Ram
41k • written 5 months ago by
bioinfo
▴ 140
4
votes
5
replies
607
views
Does adding reads cause batch effects?
kallisto
RNAseq
5 months ago by
bioinfo
▴ 140
0
votes
0
replies
337
views
Do I need to do QC before demultiplexing hashtags with hashsolo?
scanpy
hashtag
hashsolo
RNAseq
7 months ago by
bioinfo
▴ 140
1
vote
3
replies
1.0k
views
How to demultiplex data with totalseq B antibodies using hashsolo?
cellranger.
seq
hashsolo
rna
7 months ago by
bioinfo
▴ 140
0
votes
2
replies
453
views
Do I need to specify the introns on the gtf file for cellranger?
fasta
gtf
cellranger
scRNAseq
updated 7 months ago by
GenoMax
136k • written 7 months ago by
bioinfo
▴ 140
2
votes
1
reply
437
views
Can I normalize several samples with DESeq2 and then do pairwise comparisons?
deseq2
rna-seq
updated 7 months ago by
rpolicastro
12k • written 7 months ago by
bioinfo
▴ 140
1
vote
1
reply
462
views
Do indexes made with cDNA fasta file contain only mRNAs?
ensembl
kallisto
updated 9 months ago by
dsull
★ 5.1k • written 9 months ago by
bioinfo
▴ 140
0
votes
0
replies
310
views
How to analyze SCRNA seq data labelled with LARRY?
single
lineage
RNA
tracing
LARRY
updated 9 months ago by
GenoMax
136k • written 9 months ago by
bioinfo
▴ 140
2
votes
5
replies
1.1k
views
How to add gene entry to gtf file?
single-cell
cellranger
updated 9 months ago by
Ram
41k • written 9 months ago by
bioinfo
▴ 140
2
votes
5
replies
925
views
Problem with tximport and plasmodium falciparum
tximport
9 months ago by
bioinfo
▴ 140
1
vote
3
replies
1.6k
views
How to make a UMAP for single cell data and color cells by average expression of a list of genes in scanpy?
single-cell
scanpy
RNA-seq
UMAP
9 months ago by
bioinfo
▴ 140
1
vote
5
replies
919
views
How to interpret dotplot from enrichment analysis with gseapy?
gsea
single-cell
gseapy
enrichR
9 months ago by
bioinfo
▴ 140
3
votes
4
replies
638
views
How to remove a gene before making a cellranger reference?
fasta
gtf
cellranger
scRNAseq
updated 9 months ago by
ATpoint
78k • written 9 months ago by
bioinfo
▴ 140
1
vote
2
replies
385
views
Do I need to merge files after downloading them from SRA?
rna-seq
sra
9 months ago by
bioinfo
▴ 140
14
votes
8
replies
3.3k
views
Encountering error when loading scanpy?
scanpy
single-cell
scRNA-seq
9 months ago by
bioinfo
▴ 140
1
vote
0
replies
383
views
What is the difference between gseapy.prerank and gseapy.gsea?
gseapy
gsea
10 months ago by
bioinfo
▴ 140
3
votes
2
replies
453
views
Do I need to correct for sequencing depth in bulk RNA seq?
kallisto
RNA-seq
updated 9 months ago by
Ram
41k • written 10 months ago by
bioinfo
▴ 140
0
votes
0
replies
390
views
How to adjust graph in scanpy?
scanpy
single-cell
RNA-seq
10 months ago by
bioinfo
▴ 140
0
votes
0
replies
536
views
How to analyze scRNA seq data with time points (Seurat/Pseudotime)?
monocle3
scRNA-seq
pseudotime
Seurat
R
10 months ago by
bioinfo
▴ 140
2
votes
2
replies
837
views
How to perform scRNA seq analysis?
single-cell
pseudobulk
seurat
11 months ago by
bioinfo
▴ 140
3
votes
2
replies
674
views
Does the bootstrap in kallisto affect the BAM files?
RNAseq
kallisto
BAM
11 months ago by
bioinfo
▴ 140
1
vote
4
replies
1.2k
views
Issues with chromosome file in kallisto
kallisto
updated 11 months ago by
dsull
★ 5.1k • written 11 months ago by
bioinfo
▴ 140
1
vote
2
replies
628
views
How to run UMAP on single cell results from 2 different runs?
single-cell
seurat
cellranger
updated 12 months ago by
LChart
3.5k • written 12 months ago by
bioinfo
▴ 140
1
vote
3
replies
602
views
How to check gene properties (eg GC, repetitiveness, average expression level)?
deseq2
kallisto
RNA-seq
updated 9 months ago by
Ram
41k • written 12 months ago by
bioinfo
▴ 140
0
votes
10
replies
994
views
Can I demultiplex run based on i5 sequence?
demultiplexing
bcl2fastq
updated 12 months ago by
GenoMax
136k • written 12 months ago by
bioinfo
▴ 140
3
votes
13
replies
2.5k
views
How to choose parameters for kallisto single end mode?
kallisto
RNA-seq
updated 6 months ago by
Istvan Albert
99k • written 13 months ago by
bioinfo
▴ 140
7
votes
3
replies
1.5k
views
Should I merge my technical replicates for bulk RNA seq?
RNA-seq
DESeq2
updated 9 months ago by
Ram
41k • written 13 months ago by
bioinfo
▴ 140
4
votes
4
replies
774
views
Can I perform DE analysis with Seurat if I only have one sample per condition?
single
RNA
Seq
cell
seurat
updated 13 months ago by
LChart
3.5k • written 13 months ago by
bioinfo
▴ 140
0
votes
0
replies
290
views
How do I get estimated gene counts for a reference that contains GFP using Kallisto?
gene
ensembl
tximport
kallisto
14 months ago by
bioinfo
▴ 140
4
votes
4
replies
1.1k
views
How can I confirm that I installed bcl2fastq correctly?
bcl2fastq
linux
ubuntu
15 months ago by
bioinfo
▴ 140
61 results • Page
1 of 2
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6