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 : this week
all time
today
this week
this month
this year
182 results • Page
3 of 4
Sort: Votes
Rank
Views
Votes
Replies
0
votes
2
replies
295
views
How are score_weights calculated in this code?
single-cell
6 days ago by
carolofharvest
▴ 40
0
votes
1
reply
233
views
input file in rmats
rmats
updated 5 days ago by
Mathew
▴ 140 • written 7 days ago by
Lambodarswain316
• 0
0
votes
0
replies
128
views
News:
Online course: An Introduction to Nanopore Direct RNA Sequencing
Nanopore
RNAseq
5 days ago by
carlopecoraro2
★ 2.5k
0
votes
11
replies
542
views
In IGV is this a heterogeneous mutation or false call?
mutations
IGV
heterogeneous
5 days ago by
Tuck898
• 0
0
votes
1
reply
242
views
Nomalization - TCGA, RNA-seq and Microarray
TCGA
RNA-seq
Nomalization
Microarray
updated 5 days ago by
Zhenyu Zhang
★ 1.2k • written 7 days ago by
jain72744
▴ 10
0
votes
2
replies
230
views
Obtaining Infinium Methylation450K manifest for hg38
TCGA
hg38
methylation
Illumina
updated 5 days ago by
Zhenyu Zhang
★ 1.2k • written 9 days ago by
elisheva
▴ 120
0
votes
2
replies
297
views
Extracting mutation status from MAF files - TCGA
TCGA
maf
mutation
updated 5 days ago by
Zhenyu Zhang
★ 1.2k • written 14 days ago by
yahn
• 0
0
votes
5
replies
331
views
How to convert normalized BigWig file to count matrix?
count-matrix
BigWig
4 days ago by
feather-W
• 0
0
votes
0
replies
110
views
lncRNA
tcga
lncrna
4 days ago by
jain72744
▴ 10
0
votes
1
reply
194
views
Generating .bed file and .map file for polyploid vcf file through plink
bed
polyploid
map
plink
updated 4 days ago by
chrchang523
10k • written 9 days ago by
analyst
▴ 50
0
votes
2
replies
231
views
java.nio.bufferunderflowexception haplotypecaller error for bqsr reads
deducplicated
java.nio.bufferunderflowexception
haplotypecaller
bqsr
4 days ago by
analyst
▴ 50
0
votes
4
replies
401
views
Adata.raw.X in LIANA, something wrong with conversion from Seurat to adata in python.
k
4 days ago by
beginner123
• 0
0
votes
7
replies
439
views
RNAseq one control two conditions, shared and exclusive genes
conditions
RNAseq
multiple
Rstudio
updated 4 days ago by
Mohamed Abderrahmane
▴ 20 • written 18 days ago by
matteo.levorato
• 0
0
votes
1
reply
157
views
Manual Assembly and Protein Translation, HELP, assignment revision
sequence
university
assembly
protein
genomics
updated 4 days ago by
Philipp Bayer
8.5k • written 5 days ago by
samRayne
• 0
0
votes
2
replies
210
views
Output file of samtools flagstat empty
samtools-flagstat
updated 4 days ago by
colindaven
6.4k • written 5 days ago by
ramendra.sarma
• 0
0
votes
0
replies
102
views
Reference panel of normals for ensembl named refgenome
Mutect2
4 days ago by
gernophil
▴ 80
0
votes
1
reply
535
views
Using samtools with GCS (google cloud storage) on a docker container seems to give "Protocol Not Supported" error
samtools
gcs
updated 4 days ago by
aw7
▴ 300 • written 28 days ago by
abhishekghadge
• 0
0
votes
0
replies
88
views
Empty kernel in SEACells model
single-cell
scanpy
seacells
python
anndata
4 days ago by
JACKY
▴ 140
0
votes
5
replies
318
views
Too many unpaired forward reads found by Trimmomatic
Trimmomatic
4 days ago by
SilhouetteQ
• 0
0
votes
1
reply
154
views
Mouse ribosome sequences in fasta format
fasta
mm10
rRNA
updated 4 days ago by
GenoMax
142k • written 4 days ago by
octpus616
▴ 100
0
votes
0
replies
103
views
dbNSFP sift scores integration
SIFT
VEP
dbNSFP
4 days ago by
atariw
▴ 10
0
votes
1
reply
162
views
consensus sequence calling
consensus
updated 4 days ago by
bk11
★ 2.5k • written 4 days ago by
Ghada
• 0
0
votes
0
replies
104
views
reference-free assembly error assessment tools
assembly
4 days ago by
lagartija
▴ 160
0
votes
3
replies
353
views
Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so the model cannot be fit as specified.
DESeq2
4 days ago by
mropri
▴ 150
0
votes
2
replies
430
views
News:
FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
4 days ago by
David Langenberger
11k
0
votes
1
reply
149
views
Empty .best and .sing2 Files After Running Demuxlet
Biosciences
Demuxlet
updated 4 days ago by
Ram
43k • written 4 days ago by
eking28
• 0
0
votes
1
reply
142
views
Splitting Seurat object by sample layers
seurat
updated 4 days ago by
Ram
43k • written 4 days ago by
kilcdincer
▴ 10
0
votes
3
replies
192
views
Single-cell RNA-seq FindMarker and EnhancedVolcano Plot: most genes are low -log10P value
Seurat
single-cell
scRNA-seq
R
updated 4 days ago by
Ram
43k • written 4 days ago by
yau
• 0
0
votes
6
replies
421
views
Is it Possible to "Merge" data from Replicates within a VCF SNP File
snp
vcf
genomics
plink
updated 4 days ago by
Ram
43k • written 7 days ago by
ajbarrett98
• 0
0
votes
0
replies
122
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass-spectrometry
Proteins
updated 4 days ago by
Ram
43k • written 18 days ago by
atharvakarkare14
▴ 40
0
votes
1
reply
148
views
Seeking Guidance on Identifying Mutations in DARs from ATAC Data in Cancer Genomes
Genomics
Cancer-Research
ATAC-seq
updated 4 days ago by
Ram
43k • written 11 days ago by
David
• 0
0
votes
1
reply
246
views
Two-Sample Mendelian Randomization: Association between Instrumental Variable and Outcome
Mendelian-Randomization
updated 4 days ago by
Ram
43k • written 8 days ago by
Nikki
• 0
0
votes
1
reply
161
views
How to process Bulk WES data?
WES
WGS
updated 4 days ago by
GenoMax
142k • written 4 days ago by
wyuan37
• 0
0
votes
4
replies
3.6k
views
SNPEff database building error
SNP
updated 4 days ago by
Fungal genetics
• 0 • written 7.1 years ago by
ntyagi654
• 0
0
votes
1
reply
161
views
Can diamond prepdb be used to make a taxonomically aware database?
blast
diamond
taxonomy
updated 4 days ago by
GenoMax
142k • written 4 days ago by
cedric.blais
• 0
0
votes
0
replies
183
views
How to calculate correlation coefficient for chipseq?
chipseq
bigwigsummary
deeptools
correlation
3 days ago by
Emily
▴ 20
0
votes
3
replies
345
views
Snakemake wrapper issue
fastqc
snakemake
updated 3 days ago by
Wei-Chen Pan
• 0 • written 9 weeks ago by
Matvii Mykhailichenko
• 0
0
votes
0
replies
94
views
In what situations is 'outer' typically used when using anndata.concat()?
concat
anndata
scanpy
3 days ago by
Spring
• 0
0
votes
2
replies
178
views
Is it necessary to do genotype quality filteration after snp calling with GATK
snp
filteration
genotype
quality
GATK
3 days ago by
IdaHao0921
• 0
0
votes
4
replies
258
views
Galaxy StringTie error
stringtie
galaxy
3 days ago by
trkfs
• 0
0
votes
3
replies
203
views
How to access GWAVA software of data
GWAVA
updated 3 days ago by
GenoMax
142k • written 3 days ago by
nonaddldy
▴ 10
0
votes
3
replies
211
views
Biomart issue, why so few 3'utrs?
utr
biomart
updated 3 days ago by
GenoMax
142k • written 4 days ago by
RNAseqer
▴ 270
0
votes
0
replies
110
views
Is there a real ground truth for CNV data?
CNV
3 days ago by
jennyp0706
• 0
0
votes
1
reply
145
views
Post-imputation QC for input into GWAS analyses
gwas
prs
updated 3 days ago by
LauferVA
4.2k • written 3 days ago by
graeme.thorn
▴ 100
0
votes
3
replies
260
views
RNAseq RNA content
mRNA
Linux
rRNA
RNA-seq
RNA
updated 3 days ago by
noodle
▴ 580 • written 3 days ago by
doramora
▴ 10
0
votes
1
reply
131
views
What is the bin size for Bamcompare?
chip-seq
deeptools
bamcompare
updated 3 days ago by
Ram
43k • written 3 days ago by
Emily
▴ 20
0
votes
4
replies
2.3k
views
MGLTools does not work in windows 11
windows-11
Autodock
windows
MGLTools
updated 3 days ago by
Ram
43k • written 13 months ago by
mohyeddine.taleb
• 0
0
votes
0
replies
96
views
NEURON, Brian2, NEST, or PyNN
NEST
NEURON
PyNN
Brian2
2 days ago by
brunofelicianodeomena
• 0
0
votes
0
replies
99
views
Why the shape of RCS is contradictory to the p value for nonlinearity.
RCS
ggplot2
ggplot
R
updated 2 days ago by
GenoMax
142k • written 2 days ago by
Dude
• 0
0
votes
1
reply
146
views
Polish a large genome with Pilon
Pilon
Pacbio
Polish
Illumina
2 days ago by
sansan_96
▴ 90
182 results • Page
3 of 4
Recent Votes
A: Peaks And Nearby Genes
Answer: How to download dbSNP153 vcf files in hg19/GRCH37 version
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
Recent Locations •
All
CU Boulder,
just now
United States,
just now
United States,
2 minutes ago
United States,
8 minutes ago
Mexico,
9 minutes ago
United States,
9 minutes ago
United States,
10 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: Design for complex RNA-Seq experiment using Deseq2
by
swbarnes2
14k
This is a rather small experiment, I don't know that you can establish a meaningful baseline for each patient with a single pre sample, and…
Comment: GG Sankey plot
by
LauferVA
4.2k
@bk11 i changed this comment to an answer. if you disagree please let me know. thanks for sharing your knowledge. VAL
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
Thanks for the input. Unfortunately, that didn't help either. I appreciate any other tips. Thank you
Answer: GG Sankey plot
by
bk11
★ 2.5k
You need to change your data table into a 'long' format. You can do something like this- GOs_childs_recursive <- GOs_childs_recursive …
Answer: Trimming tool
by
ntsopoul
▴ 60
I use Trim Galore which automatically recognizes adaptors. https://github.com/FelixKrueger/TrimGalore Here is the script I am using for…
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: 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…
Traffic: 1870 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