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1,000 results • Page
3 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
165
views
Struggling to lift genome builds
PLINK
liftover
GWAS
updated 8 days ago by
GenoMax
141k • written 8 days ago by
srimmer
• 0
1
vote
2
replies
273
views
Can I readmap short reads to rDNA references?
rDNA
assembly
updated 8 days ago by
Ram
43k • written 8 days ago by
aniigodwinn
• 0
0
votes
0
replies
354
views
Looking for an explanation as to what the Peak Score is from HOMER, not finding any answers on Biostars yet
Homer
ATAC-seq
8 days ago by
Ronin
• 0
2
votes
7
replies
812
views
Removing duplicates
duplicates
ONT
minimap2
updated 7 days ago by
joe
▴ 510 • written 8 days ago by
quentinperriere
• 0
0
votes
1
reply
194
views
Annotating a dataset with gnomAD v4 using Hail
Python
Sequencing
Hail
Exome
Annotation
updated 8 days ago by
DKA
▴ 40 • written 8 days ago by
james.melhorn
• 0
0
votes
1
reply
184
views
Freyja plot error
Freyja
updated 8 days ago by
Ram
43k • written 8 days ago by
Adyasha
• 0
0
votes
0
replies
155
views
BIOM format can contain tabular data ?
BIOM
phyloseq
biomformat
R
8 days ago by
chemokine-1
▴ 10
0
votes
4
replies
496
views
How to reduce the variation of CIBERSORTx results?
CIBERSORTx
deconcolution
7 days ago by
feather-W
• 0
0
votes
2
replies
220
views
Bedmethyl file format
bedmethyl
methylation
updated 8 days ago by
GenoMax
141k • written 8 days ago by
njornet
▴ 20
0
votes
0
replies
168
views
sequence table for DADA2 chimera filtering
OTU
sequencetable
DADA2
8 days ago by
Ali
• 0
2
votes
4
replies
316
views
SnpEff annotates coding duplication as intronic?
snpeff
8 days ago by
kirill.zaslavsky
• 0
0
votes
2
replies
247
views
Calculating percentage of cells proliferating in single cell rna seq data
statistics
scRNA-seq
proliferation
8 days ago by
mropri
▴ 150
0
votes
0
replies
143
views
Input into WGCNA and Error on constructNetworks on RNA-Seq data - unique rownames
rownames
RNA-Seq
WGCNA
unique
9 days ago by
shasabhi1
• 0
0
votes
0
replies
133
views
How to summarize dbCAN3 results
dbCAN
CAZy
CAZyme
dbCAN3
dbCAN2
9 days ago by
Nishat
• 0
0
votes
0
replies
160
views
what exactly is a k-mer table (remora)?
remora
basecall
9 days ago by
anne
• 0
1
vote
1
reply
177
views
Help/Direction Needed for Data Analysis of RNA
Sequencing
RNA-seq
DNA-Seq
updated 9 days ago by
dsull
★ 5.8k • written 9 days ago by
niruf
• 0
0
votes
0
replies
142
views
GWAS Phenotypes
GWAS
9 days ago by
solomoncharles77
▴ 90
0
votes
2
replies
316
views
GSEA analysis in R
GSEA
R
Arabidopsis
7 days ago by
Sudip
• 0
0
votes
0
replies
122
views
Add geno header to VariantAnnotation objects
nichenet
scRNA-seq
9 days ago by
QX
• 0
2
votes
5
replies
441
views
Where to find the homopolymer regions bed file for Hg002 genome?
simple-repeats
hg002
bed
homopolymer-regions
8 days ago by
Bikram Kumar
• 0
0
votes
2
replies
257
views
Statistical Advice Needed for RNAseq Data Analysis
Statistical-Significance
Genomics
RNA-seq
Data-Analysis
updated 9 days ago by
Ram
43k • written 10 days ago by
David
• 0
1
vote
2
replies
267
views
Can I compare kallisto counts from samples with different amount of reads?
RNA-seq
kallisto
9 days ago by
bioinfo
▴ 150
0
votes
1
reply
192
views
How to get the reference panel sites for TOPMed hg37 and 38
Imputation
updated 10 days ago by
bk11
★ 2.4k • written 10 days ago by
sinhas
• 0
0
votes
1
reply
208
views
merging Seurat objects after SCT
Seurat
SCT
updated 10 days ago by
Ram
43k • written 10 days ago by
michelle.swarovski
• 0
0
votes
1
reply
202
views
Two databases: Human Microbiome Project and MGnify
Microbiome
databases
updated 10 days ago by
GenoMax
141k • written 10 days ago by
haiying.kong
▴ 360
0
votes
2
replies
263
views
RNAseq 1 control 2 different treatment
RNA-seq
9 days ago by
matteo.levorato
• 0
1
vote
0
replies
143
views
Seeking Advice on Gene Ontology Analysis for Bulk RNA-Seq Data Without Control Samples
Gene-ontology
RNA-seq
R
updated 10 days ago by
Ram
43k • written 10 days ago by
Oscar
▴ 10
0
votes
0
replies
153
views
How should I make kallisto indexes?
kallisto
updated 10 days ago by
GenoMax
141k • written 10 days ago by
bioinfo
▴ 150
2
votes
0
replies
204
views
What are good Python models/packages to predict small molecula (SMILES) binding to proteins ?
SMILES
10 days ago by
Alexander
▴ 220
1
vote
1
reply
181
views
Do I need to go back and filter my long-reads?
alignment
nanopore
filtering
QC
ONT
updated 10 days ago by
GenoMax
141k • written 10 days ago by
eesiribloom
▴ 80
0
votes
0
replies
137
views
Automated internal stop codon checker
ORF
stopcodon
internal
virus
10 days ago by
Balazs Horvath
▴ 10
0
votes
0
replies
142
views
Repeat expansion identification tools for long-read data
fragilex
repeatexpansion
long-read
fmr1
10 days ago by
adarsh_pp
▴ 40
0
votes
0
replies
151
views
FreeBayes detection capacity
reads
freebayes
long
10 days ago by
quentinperriere
• 0
0
votes
2
replies
246
views
VCF annotation with gnomADv4 using R package
annotation
gnomADv4
R
VCF
8 days ago by
DKA
▴ 40
0
votes
0
replies
161
views
Plotting heatmap of genes in each samples scRNA in Seurat
scRNA
heatmap
11 days ago by
Hien
• 0
0
votes
2
replies
286
views
Merging Outputs from plink --assoc and --hardy to Produce Table
PLINK
PANDAS
R
9 days ago by
Koketso
• 0
0
votes
0
replies
189
views
Novel cyclic peptide structure prediction
protein
structure-prediction
alphafold
peptide
updated 11 days ago by
Ram
43k • written 11 days ago by
menyawino
• 0
1
vote
3
replies
346
views
Ensembl gene id conversion
biomart
ensembl
updated 9 days ago by
ATpoint
82k • written 11 days ago by
naveedhasan2000
• 0
1
vote
2
replies
314
views
Extracting information from gff3 file produced by augustus
augustus
gff3
updated 10 days ago by
Istvan Albert
100k • written 11 days ago by
Jiang
• 0
0
votes
0
replies
190
views
Core SNP tree VS. concatenated core genome tree
phylogenetic
tree
SNP
12 days ago by
YiweiZhu
▴ 30
0
votes
2
replies
316
views
Help with understanding the identifier mapping tables in the backend of HUMAnN
metagenomics
metacyc
enzyme
biobakery
humann
12 days ago by
O.rka
▴ 710
0
votes
6
replies
548
views
PacBio adapters in transcriptome assembly from short read data?
adapter
transcriptome
sequencing
pacbio
vecscreen
10 days ago by
Dunois
★ 2.5k
4
votes
7
replies
549
views
DESeq2 Multifactor Design
RNA-seq
DESeq2
updated 12 days ago by
Ram
43k • written 13 days ago by
AHerik
▴ 20
0
votes
0
replies
187
views
Using Delly/Pindel/breakdancer for Identifying Transgene Insertion Sites in Mouse Genome
breakdancer
insertion
Pindel
variation
Delly
updated 13 days ago by
GenoMax
141k • written 13 days ago by
zec018
• 0
0
votes
0
replies
193
views
SeuratDisk: including "counts" dataset in conversion to AnnData
Seurat
SeuratDisk
AnnData
updated 13 days ago by
Ram
43k • written 13 days ago by
roussine
▴ 10
0
votes
0
replies
182
views
I am getting more annotation hits from HOMER than I have actual peaks. Is that normal?
ATAC-seq
HOMER
13 days ago by
Ronin
• 0
4
votes
13
replies
864
views
RNAseq of primary tumor and metastases in two different organ
metastases
RNA-seq
DEG
R
updated 9 days ago by
BioinfGuru
★ 1.7k • written 14 days ago by
matteo.levorato
• 0
2
votes
1
reply
245
views
VEP annotation --per_gene allele choice
VEP
updated 13 days ago by
Ram
43k • written 13 days ago by
atariw
▴ 10
0
votes
2
replies
282
views
Are GeneExpression Subtype annotations removed from TCGA-GBM?
tcga-gbm
subtyping
tcga
updated 13 days ago by
Zhenyu Zhang
★ 1.2k • written 13 days ago by
Apollonia
• 0
1
vote
1
reply
247
views
RNA seq normalization and gene gene correlation
rna-seq
pearson-correlation
vst
updated 13 days ago by
Ram
43k • written 13 days ago by
Fish
• 0
1,000 results • Page
3 of 20
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
Answer: gvcf joint calling
by
Jeremy Leipzig
22k
> Hi, guys, there is a question about the genomic gVCF file. I wonder > that since gVCF contains the non-var block records, why after merge…
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…
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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/
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