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116,611 results • Page
1 of 2333
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Haplotype Phased Assembly Contigs to Chromosome Annotations
Assembly
phased
Haplotype
Annotation
just now by
turcoa1
• 0
0
votes
0
replies
1
view
gvcf joint calling
WES
GATK
VCF
gVCF
just now by
zihanss
• 0
0
votes
1
reply
67
views
Rare Disease Variant Pathway Analysis
Pathway
analysis
updated 5 hours ago by
LauferVA
4.2k • written 5 hours ago by
The_PyPanda
▴ 10
3
votes
3
replies
141
views
Sequence read length shorter than flow cell specification
illumina
NGS
sequencing
updated 6 hours ago by
swbarnes2
14k • written 12 hours ago by
M
• 0
0
votes
0
replies
45
views
Designing single-stable RNA molecules
structure
RNA
6 hours ago by
Edna
• 0
0
votes
0
replies
54
views
How to visualize/predict the final transcript from Delly output?
WGS
DELLY
6 hours ago by
simplitia
▴ 130
0
votes
1
reply
81
views
Normalize scRNAseq data to housekeeping genes to compare several datasets
RNA-sequencing
housekeeping
Single-cell
normalization
updated 7 hours ago by
ATpoint
82k • written 8 hours ago by
AaronJaime
• 0
795
votes
167
replies
141k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.7k • written 7.4 years ago by
Istvan Albert
100k
0
votes
2
replies
139
views
BLAST using both nucleotides and taxonomic local databases
blast
ncbi
taxid
taxonomy
updated 9 hours ago by
GenoMax
141k • written 16 hours ago by
Begonia_pavonina
▴ 150
0
votes
2
replies
176
views
why renaming Idents in Seurat object doesn't work?
Seurat
RenameIdents
R
updated 6 hours ago by
Ram
43k • written 18 hours ago by
Assa Yeroslaviz
★ 1.8k
1
vote
1
reply
111
views
ScRNAseq-How to correctly choose cell type marker genes
cellAssign
cell-markers
updated 7 hours ago by
Ram
43k • written 14 hours ago by
Francesco
▴ 10
1
vote
2
replies
138
views
ScRNA data question
scRNA
Vlnplot
Samples
updated 10 hours ago by
Bioinfotec
▴ 10 • written 14 hours ago by
starswillfade
▴ 10
0
votes
0
replies
58
views
Is there a way to increase the automatic label text size in Cytoscape?
Cytoscape
10 hours ago by
avocado123
• 0
0
votes
0
replies
53
views
News:
Master Meta-analysis with R (May 13-16) - Online!
Meta-Analysis
Statistics
R
updated 7 hours ago by
Ram
43k • written 11 hours ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
49
views
How to calculate correlation coefficient for chipseq?
chipseq
bigwigsummary
correlation
11 hours ago by
Emily
▴ 10
1
vote
0
replies
65
views
How to calculate reliable Ka/Ks or dN/dS ratio for genes of interest from VCF file
dnds
kaks
VCF
11 hours ago by
rohitsatyam102
▴ 850
0
votes
0
replies
53
views
how to read graph_test output of monocle 3
monocle3
11 hours ago by
synat.keam
▴ 100
0
votes
0
replies
70
views
Job:
CTO/founding engineer role at Voyant Bio
engineer
11 hours ago by
Assaf
• 0
0
votes
1
reply
383
views
GAPIT p-value significance threshold
GAPIT
p-value
GWAS
updated 12 hours ago by
ginellegrenier
• 0 • written 4 months ago by
Clayton
• 0
3
votes
4
replies
206
views
Why gatk VariantAnnotator required bam and coverage files
gatk
VariantAnnotator
8 hours ago by
QX
• 0
2
votes
1
reply
141
views
Finding orthologs between genome error
OMA
OMAbrowser
updated 18 hours ago by
Adrian Altenhoff
★ 1.1k • written 1 day ago by
hemantcnaik
• 0
0
votes
0
replies
70
views
Why not use iBAQ for calculating differential abundance of proteins?
protein
maxquant
18 hours ago by
Aspire
▴ 300
2
votes
4
replies
213
views
Fetch table from clinvar database according to a list of rsid
python
clinvar
perl
updated 7 hours ago by
Ram
43k • written 22 hours ago by
ashaneev07
▴ 20
2
votes
3
replies
179
views
Figures are disappeared from html report of SnpEff
HTML
SnpEff
updated 16 hours ago by
Pierre Lindenbaum
161k • written 20 hours ago by
analyst
▴ 30
0
votes
1
reply
120
views
Hide positions in alignment with 99% "–" characters to ignore single sequence insertions?
alignment
gaps
updated 20 hours ago by
b.contreras.moreira
▴ 170 • written 21 hours ago by
Broccoli
• 0
0
votes
2
replies
148
views
Highest variable features in single cell data
single-cell
updated 7 hours ago by
Ram
43k • written 20 hours ago by
Kazo
• 0
0
votes
1
reply
147
views
Network Alignment
plugin
Cytoscape
CytoMCS
updated 23 hours ago by
Scooter
▴ 280 • written 1 day ago by
Akash D
▴ 40
2
votes
4
replies
2.3k
views
How could I generate a gi_taxid_nucl.dmp file similar to the one previously hosted by NCBI?
ncbi
metagenomics
centrifuge
gi_taxid_nucl.dmp
taxonomy
updated 1 day ago by
ZhangYuanfeng
• 0 • written 2.4 years ago by
Frazier Baker
• 0
0
votes
1
reply
145
views
PCA plot
DESeq2
PCAplot
updated 13 hours ago by
jkim
▴ 170 • written 1 day ago by
Aaliya
▴ 10
0
votes
1
reply
137
views
Tutorial:
how to combine multiple RNAseq count files into a single dataframe in R and unix
Unix
RNAseq
R
updated 7 hours ago by
Ram
43k • written 1 day ago by
Ming Tommy Tang
★ 3.9k
0
votes
3
replies
278
views
Heatmap and rna-seq
RNA-Seq
Heatmap
updated 7 hours ago by
Ram
43k • written 2 days ago by
qudrat.nii
▴ 10
0
votes
4
replies
2.6k
views
Lositan freezing when generating selection table
LOSITAN
updated 1 day ago by
evawillms183
• 0 • written 8.3 years ago by
andrepleao
• 0
0
votes
0
replies
92
views
Can you give me an example of a small globular protein (PDB) that has disordered alpha-carbons?
protein
pdb
alpha-carbon
1 day ago by
4fzcgueyp5
• 0
2
votes
3
replies
271
views
clustalo - align milions of short seq, memory issue
memory
clustalo
updated 3 days ago by
Mensur Dlakic
★ 27k • written 3 days ago by
emmanouil.a
▴ 120
0
votes
2
replies
187
views
Annovar using R package
Annovar
gnomAD
R
7 hours ago by
DKA
▴ 40
0
votes
2
replies
177
views
Creating Synthetic Sequences for a ML Model
DNA
ML
updated 1 day ago by
Mensur Dlakic
★ 27k • written 1 day ago by
biochugs
• 0
3
votes
8
replies
481
views
PCA plot (Suggestions Needed)
DESeq2
PCAplot
updated 22 hours ago by
swbarnes2
14k • written 1 day ago by
Aaliya
▴ 10
1
vote
8
replies
749
views
Adding CB tag to bam file
samtools
bam
updated 19 hours ago by
Pierre Lindenbaum
161k • written 7 days ago by
Maria
• 0
1
vote
10
replies
893
views
Troubleshooting RNA-seq data with DNA contamination
RNA-seq
DESeq2
DNA-contamination
1 day ago by
DKA
▴ 40
0
votes
2
replies
781
views
AGeNT LocatIt
AGeNT
LocatIt
WES
UMI
duplicates
updated 1 day ago by
barslmn
★ 2.1k • written 2.8 years ago by
jhy
▴ 10
0
votes
5
replies
270
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
updated 14 hours ago by
GenoMax
141k • written 1 day ago by
Bertalan_Takacs
▴ 90
0
votes
0
replies
117
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA
GDCprepare
updated 1 day ago by
Ram
43k • written 1 day ago by
glaciya2018
• 0
0
votes
0
replies
102
views
News:
8th Berlin Summer School in NGS Data Analysis - Apply Now
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
updated 7 hours ago by
Ram
43k • written 1 day ago by
David Langenberger
11k
0
votes
0
replies
236
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome
PGAP
NCBI
roary
Prokka
1 day ago by
pramach1
▴ 40
0
votes
13
replies
3.5k
views
6 follow
Tax4Fun2 - error
tax4fun
silva
blast
updated 1 day ago by
drstalinantony28
• 0 • written 2.2 years ago by
ymj
▴ 10
0
votes
1
reply
133
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate
GEMMA
GWAS
updated 1 day ago by
Sofia
• 0 • written 1 day ago by
mawigoj318
• 0
0
votes
0
replies
122
views
Sequence BLAST in plus/minus and plus/plus
blast
CRISPR
strand
sequencing
1 day ago by
salias
• 0
4
votes
7
replies
402
views
To get p-values for the TPM
P-value
TPM
RSEM
updated 19 hours ago by
dsull
★ 5.8k • written 1 day ago by
VITALA
• 0
0
votes
4
replies
244
views
different FeatureCounts output for the same data
fpkm
Counts
Rsubread
rna-seq
19 hours ago by
sehriban.buyukkilic
▴ 10
0
votes
0
replies
107
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq
single-cell
suppa
alternative-splicing
updated 1 day ago by
Ram
43k • written 1 day ago by
newuser2024
• 0
116,611 results • Page
1 of 2333
Recent Votes
Answer: Seurat merge and batch correction
Comment: How to convert plink files to Hapmap Format
Comment: How to convert plink files to Hapmap Format
Comment: How to convert plink files to Hapmap Format
Comment: How to convert plink files to Hapmap Format
Comment: How to convert plink files to Hapmap Format
Answer: Missing protein (VEGF-A) in String db
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Recent Replies
Comment: Missing protein (VEGF-A) in String db
by
shalespringer
• 0
Thank you for replying here; this helped me figure out why MAPK10 was missing from my results. It was also marked as a pseudogene in the En…
Comment: How to convert plink files to Hapmap Format
by
Sofia
• 0
These are the first lines of the output: (Please is it normal to have NA in the P value column ?) CHR …
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
by
atowns21
• 0
So I used the barcodes that I created (combos of positions 1-10 and 11-20) and I obtained similar alignment stats as the paper I pulled the…
Comment: How to convert plink files to Hapmap Format
by
Sofia
• 0
Thank you so much, it actually worked!
Answer: Rare Disease Variant Pathway Analysis
by
LauferVA
4.2k
Hi @efc1e545 , First a caveat. the information we most need in order to help guide you to a successful conclusion is not provided in thi…
Answer: Sequence read length shorter than flow cell specification
by
swbarnes2
14k
The company probably had you share your run with someone who needed the extra bases. So you get the extra bases free. Just use them unle…
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
by
Ram
43k
Thank you, the `csvtk spread` is super useful. I usually import into R using `lapply` then `Reduce` using `merge` but this might be easier.
Comment: Annovar using R package
by
DKA
▴ 40
Thank you for your guidance. The thing is that I am unfamiliar with using such environments, unfortunately.
Comment: Treatment VS Control in Single Cell RNAseq analysis
by
ATpoint
82k
Open a new question, with details.
Comment: Normalize scRNAseq data to housekeeping genes to compare several datasets
by
ATpoint
82k
I recommend https://bioconductor.org/books/3.18/OSCA.basic/normalization.html as well as the "advanced" section in this book.
Comment: Why gatk VariantAnnotator required bam and coverage files
by
QX
• 0
thank you!
Comment: Treatment VS Control in Single Cell RNAseq analysis
by
kilcdincer
▴ 10
Hello, I have more or less same experimental setting and was wondering how you proceeded with your analysis? Can I reach its GitHub reposit…
Comment: BLAST using both nucleotides and taxonomic local databases
by
GenoMax
141k
> I ask this as some BLAST command fields as scinames or sblastnames do not give any output with a classic nt BLAST If that information is…
Answer: BLAST using both nucleotides and taxonomic local databases
by
5heikki
11k
This has been discussed [many times][1] [1]: https://www.biostars.org/p/76551/
Answer: why renaming Idents in Seurat object doesn't work?
by
Bioinfotec
▴ 10
I think when you give indent to seuObj : ```r Idents(seuObj) <- 'RNA_snn_res.0.1' ``` You may wrongly assign other value to it such as `…
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