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
Limit : today
all time
today
this week
this month
this year
37 results • Page
1 of 1
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
15
views
sci-RNA-seq
cell
single
seurat
sci-rna-seq
counts
37 minutes ago by
kilcdincer
▴ 10
0
votes
1
reply
31
views
Trimming tool
Trimmer
tool
updated 1 hour ago by
GenoMax
142k • written 1 hour ago by
GeneC
• 0
0
votes
0
replies
18
views
Design for complex RNA-Seq experiment using Deseq2
Model.Matrix
RNA-Seq
Limma
DESeq2
edgeR
1 hour ago by
Ezequiel
• 0
0
votes
0
replies
29
views
GG Sankey plot
GO
sankey_plot
gglpot
updated 57 minutes ago by
GenoMax
142k • written 2 hours ago by
ijarne
• 0
0
votes
0
replies
48
views
genomic region of transcription factor
search
HOMER
motif
2 hours ago by
qudrat.nii
▴ 10
1
vote
5
replies
231
views
Reconstruction of locus, order contigs
contigs
cluster
alignment
locus
updated 2 hours ago by
dthorbur
★ 2.0k • written 20 hours ago by
BATMAN
• 0
0
votes
5
replies
142
views
ComplexHeatmap - How to change fontsize of rowAnnotation
ComplexHeatmap
updated 1 hour ago by
bk11
★ 2.5k • written 5 hours ago by
hannes.bongartz
• 0
0
votes
0
replies
49
views
Understanding behaviour of SCTransform in Seurat
Seurat
scRNASeq
normalization
updated 6 hours ago by
GenoMax
142k • written 7 hours ago by
yura.grabovska
▴ 90
4
votes
7
replies
429
views
In one PCA plot, can I calculate the percentage of different factors that contribute to the PCA?
PCA
R
VARIANCE
updated 7 hours ago by
marco.barr
▴ 130 • written 2 days ago by
diqixiaoyaoer
▴ 20
0
votes
0
replies
52
views
constructing pangenome through psvcp
psvcp
pangenome
9 hours ago by
analyst
▴ 50
1
vote
9
replies
250
views
zero TPM for many gene including housekeeping when using kallisto
RNAseq
3 hours ago by
ashkan
▴ 160
0
votes
1
reply
89
views
What marks a De-Novo Genome assembly as FAILED?
nanopore
denovo
illumina
assembly
genome
updated 8 hours ago by
dthorbur
★ 2.0k • written 10 hours ago by
Umer
▴ 50
0
votes
2
replies
149
views
How to handle duplicated genes in TCGA data?
TCGA
GDC
mRNA
updated 3 hours ago by
Zhenyu Zhang
★ 1.2k • written 19 hours ago by
Ngrin
• 0
4
votes
9
replies
394
views
Faster Needleman-Wunsch rapid global alignment of two sequences?
Needleman-Wunsch
alignment
6 hours ago by
Gabriel R.
★ 2.9k
0
votes
2
replies
152
views
How to generate table_annovar from VCF input?
vcf
annovar
updated 11 hours ago by
Pierre Lindenbaum
161k • written 17 hours ago by
melissachua90
▴ 70
0
votes
0
replies
59
views
How do I quantify the non-coding transcripts that I have generated after using CPAT,PLEK, and BLAST altogether?
transcript
Quantify
non-coding
13 hours ago by
Varsha
• 0
0
votes
1
reply
174
views
solution-Transcriptome.cpp:18:Transcriptome: exiting because of *INPUT FILE* error: could not open input file /geneInfo.tab #2142
STAR
updated 9 hours ago by
GenoMax
142k • written 16 hours ago by
huxiangyulove
• 0
0
votes
0
replies
76
views
Help interpreting KEGG module definitions for converting to NetworkX graph
definition
kegg
module
database
genomics
20 hours ago by
O.rka
▴ 720
4
votes
5
replies
4.3k
views
Tool:
GRIDSS: the Genomic Rearrangement IDentification Software Suite
Assembly
Structural-Variation
Variant-Calling
updated 20 hours ago by
dario.garvan
▴ 520 • written 7.2 years ago by
d-cameron
★ 2.9k
0
votes
4
replies
253
views
Merge clusters in Seurat UMAP
seurat
umap
11 hours ago by
kilcdincer
▴ 10
2
votes
2
replies
192
views
Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
single-cell
ambient-RNA
updated 23 hours ago by
Ram
43k • written 1 day ago by
txema.heredia
▴ 130
1
vote
0
replies
95
views
News:
Course on Manual Genome Curation
Genome-Assembly
Pretext-View
Manual-Genome-Curation
updated 20 hours ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
6
votes
4
replies
262
views
Details on salmon index
Salmon
updated 6 hours ago by
Rob
6.6k • written 1 day ago by
Lorenzo
• 0
3
votes
4
replies
265
views
Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer version?
RNA-seq
patch
freeze
genome
updated 4 hours ago by
Jeremy Leipzig
22k • written 1 day ago by
Ali
• 0
0
votes
4
replies
260
views
How to extract cells of different species after mapping with combined genome?
snRNA-seq
scRNA-seq
updated 14 hours ago by
Tony
• 0 • written 1 day ago by
vk
▴ 10
1
vote
5
replies
239
views
Can I perform a correlation test with 3 biological replicates per condition?
RNA-Seq
deseq2
updated 20 hours ago by
Ram
43k • written 1 day ago by
manuelmourato25
• 0
2
votes
11
replies
643
views
DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts in whole blood: is it normal to always get NS?
rstudio
DEG
limma
11 hours ago by
egascon
• 0
1
vote
1
reply
145
views
API kegg - IndexError: list index out of range
kegg
API
updated 16 hours ago by
Nyksubuz
▴ 20 • written 1 day ago by
mirwa.zidi93
• 0
0
votes
3
replies
227
views
Sam file Header problem
Sam
Header
problem
file
updated 12 hours ago by
Pierre Lindenbaum
161k • written 1 day ago by
saifulislam99121
• 0
1
vote
4
replies
226
views
Tool:
Converting Degree Minutes (DM) to Decimal Degrees (DD) using python script
Minutes
Decimal
offtopic
Degrees
python
updated 20 hours ago by
Ram
43k • written 2 days ago by
kuttibiotech2009
▴ 30
1
vote
1
reply
156
views
Tool:
Collect dispersed executable files and run them by using bingo.
bingo
updated 20 hours ago by
Ram
43k • written 1 day ago by
dwpeng
▴ 10
0
votes
1
reply
135
views
BiomartException: Query ERROR for existing dataset in BioMart
biomart
ensembl
wheat
python
pybiomart
updated 14 hours ago by
Nyksubuz
▴ 20 • written 1 day ago by
Luqman
• 0
2
votes
3
replies
215
views
ggrepel function: geom_text_repel()
ggplot2
ggrepel
R
updated 20 hours ago by
Ram
43k • written 1 day ago by
sooni
▴ 20
0
votes
3
replies
194
views
how to treat the replicates while performing WGCNA
clustering
WGCNA
replicates
updated 3 hours ago by
andres.firrincieli
3.6k • written 1 day ago by
mavy
▴ 10
0
votes
1
reply
151
views
Add line under stat test
stats
R
updated 16 hours ago by
Nyksubuz
▴ 20 • written 2 days ago by
Ghada
• 0
1
vote
14
replies
616
views
Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NULL > pointer.
blast
ncbi
13 hours ago by
hophuquy0944
• 0
38
votes
12
replies
31k
views
9 follow
How to systematically check if a bam file is truncated
Exomeseq
updated 3 hours ago by
alanh
▴ 170 • written 7.1 years ago by
jonessara770
▴ 240
37 results • Page
1 of 1
Recent Votes
Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
Answer: TFs and Gene databases
A: Is there a software that can compare phylogenetic trees to each othe (face to fa
Comment: Differentially Expressed Genes between two conditions (scRNA, single GEO dataset
Differentially Expressed Genes between two conditions (scRNA, single GEO dataset with multiple samples and no cell annotations)
Differentially expressed genes between Seurat objects
Recent Locations •
All
United States,
just now
United States,
2 minutes ago
Oviedo,
3 minutes ago
United States,
4 minutes ago
United States,
5 minutes ago
United States,
6 minutes ago
United Kingdom,
12 minutes ago
Recent Awards •
All
Popular Question
to
finswimmer
16k
Popular Question
to
Ezequiel
• 0
Popular Question
to
alanh
▴ 170
Scholar
to
Peter
6.0k
Popular Question
to
ashkan
▴ 160
Supporter
to
Umer
▴ 50
Scholar
to
zx8754
11k
Recent Replies
Answer: Trimming tool
by
GenoMax
142k
There are plenty. `bbduk.sh` from BBMap suite (https://jgi.doe.gov/data-and-tools/software-tools/bbtools/bb-tools-user-guide/bbduk-guide/ )…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
bk11
★ 2.5k
Please check out [in this link.][1] [1]: https://github.com/jokergoo/ComplexHeatmap/issues/349
Comment: Reconstruction of locus, order contigs
by
dthorbur
★ 2.0k
[Here](https://www.biostars.org/p/9544689/) is a forum post that may answer your question.
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ashkan
▴ 160
@atpoint I checked all transcripts of GAPDH. they all have 0 TPM.
Comment: how to treat the replicates while performing WGCNA
by
andres.firrincieli
3.6k
> 1) I do not want to merge the MEs rather I asked about replicates, as > some replicates of same sample are showing different behavior for…
Comment: How to systematically check if a bam file is truncated
by
alanh
▴ 170
For more details about what `samtools quickcheck` actually checks for, add a few `-v`'s to the command line. $ samtools quickcheck -…
Comment: How to handle duplicated genes in TCGA data?
by
Zhenyu Zhang
★ 1.2k
Second what is said above, ensembl_id is the unique identifier. As a good bioinformatics habit, always use unique identifier for your anal…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
It doesn't work. The annotation labels are still in a default fontsize. I cant find a way to set the fontsize.
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
Ram
43k
Yes. The solution to most things with ComplexHeatmap is to play around with parameters.
Comment: Reconstruction of locus, order contigs
by
BATMAN
• 0
I do not want to re-annotate the genome. I ask if there is a way to extract the region aligned with the mauve, in .gbk format.
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
Thank you. What exactly do you mean? Changing `ha = rowAnnotation(text = anno_mark(at = mark_at, labels = gene_names_interesting_in_cluster…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
Ram
43k
Try tweaking the `gp` of the rowAnnotation instead of tweaking the `annotation_name_gp` - that might do the trick.
Comment: Help! Reconstruction of locus, order contigs
by
dthorbur
★ 2.0k
I don't understand your comment. What do you mean? > my idea is not to have to write it down If you have an alignment already, why can't…
Comment: Details on salmon index
by
Rob
6.6k
Hi Lorenzo, That is correct. The initial version of salmon used the RapMap index explained above. When we published the selective align…
Comment: Help! Reconstruction of locus, order contigs
by
BATMAN
• 0
Thanks for your reply, my idea is not to have to write it down. What I have is an alignment of the .gbk from the progressiveMauve. It would…
Traffic: 2245 users visited in the last hour
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