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961 results • Page
4 of 20
Sort: Rank
Rank
Views
Votes
Replies
38
votes
24
replies
2.0k
views
10 follow
NGS forensics: how to know if data is fabricated
fastq
STAR
NGS
Illumina
updated 5 days ago by
i.sudbery
19k • written 8 days ago by
noodle
▴ 580
0
votes
0
replies
597
views
Differential accessibility using DiffBinf
diffbind
7 days ago by
Shloka
• 0
0
votes
0
replies
99
views
vg call vs vg surject
vg
variation
graphs
updated 6 days ago by
GenoMax
142k • written 7 days ago by
aliraza3119
• 0
0
votes
1
reply
140
views
Can I merge Hi-C fastq files from different lanes?
GenomeAssembly
BWA-MEM2
Hi-C
updated 6 days ago by
GenoMax
142k • written 7 days ago by
Winter
• 0
2
votes
7
replies
1.3k
views
6 follow
Differential Expression using Isoseq-supplemented reference transcriptome
RNA-Seq
Salmon
Isoseq
updated 7 days ago by
Gordon Smyth
★ 7.1k • written 8 months ago by
Calum
▴ 10
0
votes
1
reply
214
views
Finding batch and outlayers
Pca
updated 6 days ago by
christopher medway
▴ 460 • written 7 days ago by
Tigran
• 0
2
votes
2
replies
206
views
PDB related issue
rcsb
pdb
updated 7 days ago by
noodle
▴ 580 • written 7 days ago by
Nafi
• 0
0
votes
0
replies
115
views
News:
Online course: Genome Annotation
Genome-Assembly
Genome-Annotation
6 days ago by
carlopecoraro2
★ 2.5k
0
votes
8
replies
441
views
What does it mean single base resolution in sequencing?
SNP
sequencing
updated 5 days ago by
LauferVA
4.2k • written 7 days ago by
jinyu
▴ 10
0
votes
9
replies
2.5k
views
6 follow
Cannot process all the reads in a fast5 file?
metagenome
base-calling
fastq
nanopore
updated 7 days ago by
Ram
43k • written 8 months ago by
Gio
• 0
2
votes
5
replies
489
views
Fetch table from clinvar database according to a list of rsid
python
clinvar
perl
7 days ago by
ashaneev07
▴ 20
1
vote
2
replies
222
views
Downloading full alignments from Pfam
pfam
18 hours ago by
bef1
• 0
0
votes
1
reply
754
views
Can I run cellassign on samples independently if there is batch effect present?
RNA-Seq
R
cellassign
batch-effect
updated 7 days ago by
Francesco
▴ 10 • written 3.3 years ago by
gt
▴ 30
3
votes
2
replies
299
views
ChIP-seq datasets: input samples omitted?
ChIP-seq
Normalization
NGS
updated 6 days ago by
i.sudbery
19k • written 9 days ago by
vanbelj
▴ 40
0
votes
0
replies
124
views
adjusting for confounders in LMER in R
confounders
LMER
R
updated 6 days ago by
dariober
14k • written 8 days ago by
rene.j.erhardt
▴ 20
1
vote
3
replies
307
views
How to assign cell types after integration in scRNA
scRNA-seq
updated 7 days ago by
ATpoint
82k • written 8 days ago by
Francesco
▴ 10
0
votes
0
replies
140
views
STAR total splices (in Log.final) vs collapsed splice junctions (in SJ.out.tab)
STAR
8 days ago by
tnminh89
▴ 10
0
votes
0
replies
146
views
Filter low express genes in microarray data
microarray
8 days ago by
Chris
▴ 260
0
votes
1
reply
338
views
absolute path for symbolic links in Snakefile
Snakemake
updated 8 days ago by
Jesse
▴ 740 • written 16 days ago by
yifangt86
▴ 60
0
votes
2
replies
360
views
Hide positions in alignment with 99% "–" characters to ignore single sequence insertions?
alignment
gaps
updated 8 days ago by
Jesse
▴ 740 • written 11 days ago by
Broccoli
• 0
4
votes
3
replies
372
views
Source other conda environments in a nextflow pipeline when nextflow itself is in a conda environment?
hpc
conda
nextflow
updated 8 days ago by
Arup Ghosh
3.2k • written 9 days ago by
chaco001
▴ 40
1
vote
3
replies
398
views
Help understanding how KEGG Ortholog `K00004 ` has 3 ECs associated with it (EC:1.1.1.4, 1.1.1.-, 1.1.1.303)?
ontology
metagenomics
database
enzymes
genomics
updated 7 days ago by
Mensur Dlakic
★ 27k • written 9 days ago by
O.rka
▴ 710
0
votes
2
replies
263
views
Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
RNA-Seq
edgeR
8 days ago by
Guille
• 0
4
votes
2
replies
307
views
How to use limma to find differentially expressed genes in response to a continuous variable
limma
voom
R
6 days ago by
pairedttest
▴ 10
3
votes
6
replies
2.0k
views
7 follow
DNA methylation preprocessing
SWAN
DNA
methylation
Funnorm
updated 9 days ago by
Ram
43k • written 2.4 years ago by
SYOSY
▴ 10
0
votes
0
replies
571
views
Correlation between cell type prediction scores and individual gene expression in spatial transcriptomic datasets
single-cell
Spatial-Transcriptomics
9 days ago by
biocellbio
• 0
4
votes
8
replies
674
views
Create a new bed file with all pairwise combinations between two other bed files, based on bp distance
SNPs
BED
eqtl
bedtools
updated 9 days ago by
Alex Reynolds
35k • written 10 days ago by
J
▴ 10
4
votes
7
replies
717
views
7 follow
Heatmap and rna-seq
RNA-Seq
Heatmap
updated 9 days ago by
dsull
★ 6.0k • written 13 days ago by
qudrat.nii
▴ 10
19
votes
11
replies
14k
views
10 follow
How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
utr
updated 9 days ago by
cmdcolin
★ 3.8k • written 10.8 years ago by
J.F.Jiang
▴ 920
3
votes
2
replies
335
views
what is the purpose of indexing the reference genome (Kallisto)
indexing
Kallisto
updated 9 days ago by
dsull
★ 6.0k • written 10 days ago by
Aaliya
▴ 10
3
votes
0
replies
213
views
News:
Webinar “Learning Single-cell Atlases” with Dr. Fabian Theis, author of Scanpy on May 8
Scanpy
Generative-AI
scRNA
Machine-Learning
updated 9 days ago by
Ram
43k • written 9 days ago by
Claire Watson
▴ 60
0
votes
2
replies
301
views
Rare Disease Variant Pathway Analysis
Pathway-analysis
updated 9 days ago by
Ram
43k • written 10 days ago by
The_PyPanda
▴ 10
0
votes
0
replies
206
views
Phasing VCF Files and Analyzing Reads with Multiple Variants
haplotypes
vcf
phasing
9 days ago by
HarperReed
• 0
3
votes
3
replies
316
views
genome assembly records not present in assembly_summary.txt
ncbi
bacteria
assembly
updated 9 days ago by
GenoMax
142k • written 9 days ago by
sapuizait
▴ 10
1
vote
0
replies
161
views
Simulation of label-free bottom-up proteomics expression dataset
label-free
bottom-up
lc-ms
proteomics
10 days ago by
KABILAN
▴ 70
0
votes
0
replies
179
views
Running Phylogenetic Analysis With NCBI Genome
population-genetics
phylogenetic
updated 9 days ago by
Ram
43k • written 10 days ago by
SineWave
• 0
0
votes
0
replies
173
views
RNA-seq: full length gene
RNA-seq
updated 9 days ago by
Ram
43k • written 10 days ago by
Nargis
• 0
1
vote
7
replies
514
views
gvcf joint calling
WES
GATK
VCF
gVCF
7 days ago by
zihanss
• 0
0
votes
0
replies
159
views
Haplotype Phased Assembly Contigs to Chromosome Annotations
Assembly
phased
Haplotype
Annotation
10 days ago by
turcoa1
• 0
3
votes
3
replies
334
views
Sequence read length shorter than flow cell specification
illumina
NGS
sequencing
updated 10 days ago by
swbarnes2
14k • written 10 days ago by
M
• 0
0
votes
0
replies
171
views
Designing single-stable RNA molecules
structure
RNA
10 days ago by
Edna
• 0
0
votes
0
replies
183
views
How to visualize/predict the final transcript from Delly output?
WGS
DELLY
10 days ago by
simplitia
▴ 130
1
vote
1
reply
243
views
Normalize scRNAseq data to housekeeping genes to compare several datasets
RNA-sequencing
housekeeping
Single-cell
normalization
updated 10 days ago by
ATpoint
82k • written 10 days ago by
AaronJaime
• 0
0
votes
2
replies
316
views
BLAST using both nucleotides and taxonomic local databases
blast
ncbi
taxid
taxonomy
updated 10 days ago by
GenoMax
142k • written 10 days ago by
Begonia_pavonina
▴ 150
0
votes
3
replies
412
views
why renaming Idents in Seurat object doesn't work?
Seurat
RenameIdents
R
5 days ago by
Assa Yeroslaviz
★ 1.8k
1
vote
2
replies
356
views
ScRNAseq-How to correctly choose cell type marker genes
cellAssign
cell-markers
8 days ago by
Francesco
▴ 10
1
vote
7
replies
527
views
ScRNA data question
scRNA
Vlnplot
Samples
updated 6 days ago by
bk11
★ 2.4k • written 10 days ago by
starswillfade
▴ 10
0
votes
0
replies
170
views
News:
Master Meta-analysis with R (May 13-16) - Online!
Meta-Analysis
Statistics
R
updated 10 days ago by
Ram
43k • written 10 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
165
views
How to calculate correlation coefficient for chipseq?
chipseq
bigwigsummary
correlation
10 days ago by
Emily
▴ 10
1
vote
0
replies
179
views
How to calculate reliable Ka/Ks or dN/dS ratio for genes of interest from VCF file
dnds
kaks
VCF
10 days ago by
rohitsatyam102
▴ 850
961 results • Page
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mitochondria in single nuclear RNAseq
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Answer: install.packages("imudata")
by
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82k
Welcome to this community. Please learn the most important lesson right away which is reading answers and learning from it. Users gave you …
Comment: install.packages("imudata")
by
marco.barr
▴ 90
You can install from github directly. Many R packages are not present in the CRAN repository or in Bioconductor( from Biocmanager). Also re…
Comment: install package
by
snajafy
• 0
Hi, Thanks for your answer, I do it, but I get this error: ERROR: compilation failed for package 'gmwm' removing 'C:/Users/najafi/AppData/…
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3.6k
There is something wrong with your data but without any context I can't really answer to your question. I would like to see a PCA plot of …
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please could you tell me what was the solution, I am having the same problem, I only get empty files.
Comment: install package
by
snajafy
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Hi, Thanks for your answer, I do it, but I get this error: ERROR: compilation failed for package 'gmwm' * removing 'C:/Users/najafi/AppData…
Answer: Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so t
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14k
Any chance the numerical columns were imported as factors?
Comment: ERROR When Using Ensembl Plants Biomart Wget API
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Thank you very much, that works perfectly :) ! Maybe someone needs to use a plant dataset as an example (instead of human dataset ) in the …
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I also have this problem, but it doesn't work even I remove the Xms32g. The result bam is still malformed.
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aaron.stevens
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Hey, I believe they are mapped to hg19 and this is potentially a bigger problem than people realise, I nearly made this mistake and I would…
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by
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This worked beautifully using 'requests.get()' in python, thank you so much!
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if I understood correctly, I might need fle `prot.accession2taxid.gz` file? According to the [documentation][1] in column 2 is Accession.ve…
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