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1,000 results • Page
1 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
4
replies
57
views
I need help with a methyl array data analysis
methyl_array
DMPs
DMRs
beta_value
r
1 hour ago by
Ahmad
▴ 10
0
votes
0
replies
36
views
Error in download library file in expression console software
expression
microarray
console
3 hours ago by
Mohammad
• 0
0
votes
4
replies
153
views
Demultiplexing bam file
demultiplexing
bam_file
Iontorrent
updated 4 hours ago by
GenoMax
129k • written 10 hours ago by
hasani.iut6
▴ 60
1
vote
2
replies
137
views
DEgs RNAseq
RNAseq
4 hours ago by
Juan
• 0
0
votes
0
replies
88
views
Different alternatives for downloading GWAS summary statistics en masse
GWAS
download
data
19 hours ago by
Vincent Laufer
★ 2.8k
0
votes
1
reply
111
views
problem of Global Biobank Meta-analysis Initiative
GWAS
updated 2 hours ago by
Fabio Marroni
★ 3.0k • written 1 day ago by
1362321710
• 0
0
votes
1
reply
143
views
DownsampleSam
picard
DownsampleSam
updated 1 day ago by
Pierre Lindenbaum
154k • written 1 day ago by
mathalfilip
• 0
0
votes
2
replies
217
views
ABySS genome assembler
ABySS
genome
k-mers
assembly
1 day ago by
npavliukovec
• 0
0
votes
1
reply
154
views
Error while running Megahit
Megahit
updated 13 hours ago by
Mensur Dlakic
★ 23k • written 1 day ago by
abhiramiabhirami9072
• 0
0
votes
1
reply
171
views
How to deal with duplicated gene IDs in TCGA RNA expression data?
TCGA
Expression
mRNA
updated 20 hours ago by
Vincent Laufer
★ 2.8k • written 1 day ago by
Camilo Andres
▴ 30
1
vote
5
replies
292
views
Cutadapt error: too many parameters.
cutadapt
parallel
bash
updated 1 day ago by
GenoMax
129k • written 2 days ago by
DanielEB_fisk
• 0
0
votes
0
replies
135
views
corresponding clinical data from TCGA database of PSI values for CCA AS events in spliceseq database
TCGA
2 days ago by
dima
• 0
1
vote
0
replies
188
views
How to assess which cell population is most affected by treatmant in single cell rna seq data?
transcriptomics
single-cell
RNA
DEG
2 days ago by
abbas89
▴ 10
0
votes
0
replies
462
views
Can I send my PyMol results to a web-page as a result for a submitted query? If not, how can I get a 3d render of a protein as a result for a user su…
protein-structure
pymol
protein
pdb
python
2 days ago by
Aatif Hashmi
• 0
0
votes
1
reply
239
views
Deferentially expressed gene with high log2foldchange by DESeq2; but not meaningful at the individual level
DESeq2
RNA-seq
DGEA
updated 2 days ago by
Vincent Laufer
★ 2.8k • written 2 days ago by
Sara
▴ 10
1
vote
2
replies
190
views
Abyss taking a Long time to run
abyss
assembly
genome
fastq
2 days ago by
Maliha
▴ 20
0
votes
2
replies
215
views
Import or read Snapgene .dna files into R
R
.dna
snapgene
2 days ago by
eggrandio
▴ 40
2
votes
2
replies
209
views
Segmentation fault Biopython pairwise alignment
biopython
alignment
updated 2 days ago by
Istvan Albert
98k • written 2 days ago by
antoine.fauchois92
▴ 20
0
votes
0
replies
111
views
BEAST Divergence time Analysis
time
BEAST
BEAUti
divergence
2 days ago by
ahmadjoyyia
▴ 10
0
votes
0
replies
127
views
Differential Gene Expression analysis in heterogeneous tissues
RNA-seq
deseq2
updated 2 days ago by
Ram
39k • written 2 days ago by
txema.heredia
▴ 70
0
votes
1
reply
177
views
Variant Annotation
Variant-Annotation
VCF
R
updated 2 days ago by
Ram
39k • written 2 days ago by
Chethana
• 0
0
votes
1
reply
203
views
too many zeros in 16S rRNA amplicon sequencing data
16S
rRNA
updated 1 day ago by
andres.firrincieli
3.3k • written 2 days ago by
zhangdengwei
▴ 180
0
votes
1
reply
165
views
Finding Kinetic Parameters from Western Blot images
image-processing
western-blot
updated 2 days ago by
Ram
39k • written 2 days ago by
Vijeth
• 0
0
votes
0
replies
140
views
Chipseq data peak calling issue
Bioinformatics
sequencing
chipseq
RNA
data
2 days ago by
Adyasha
• 0
0
votes
0
replies
143
views
Assigned taxonomy after dada2 only "NAs" or "Mitochondria"
16S
dada2
DECIPHER
ITS
taxonomy
2 days ago by
mattze731
• 0
0
votes
0
replies
135
views
I want to set the null hypothesis for the test of genetic correlation to rg=1.
correlation
LDSC
genetic
2 days ago by
Apprentice
▴ 130
0
votes
2
replies
248
views
About inconsistent cell counts per samples obtained in small nuclear RNAseq data.
Seurat
QC
Single-Cell
2 days ago by
bk11
▴ 60
0
votes
1
reply
182
views
Identifying Mutation Frequency Changes in MSAs over time?
Mutation
Fasta
MSA
MutationRate
RNA-Seq
updated 2 days ago by
Vincent Laufer
★ 2.8k • written 3 days ago by
Saran
▴ 20
1
vote
1
reply
149
views
Import Pymol into Python Script
Pymol
python
updated 3 days ago by
Wayne
★ 1.8k • written 3 days ago by
jdrohan
• 0
0
votes
5
replies
328
views
how find high correlated variables with a specific cutoff in R?
PEARSON
correlation
r
updated 2 days ago by
jv
★ 1.2k • written 3 days ago by
satva72
• 0
1
vote
2
replies
186
views
INSTALLING DEseq2 via conda
seq
conda
RNA
Dseq2
updated 2 days ago by
colindaven
4.8k • written 3 days ago by
Fizzah
▴ 20
0
votes
1
reply
136
views
making metadata file for differential gene expression analysis
RNAseq
updated 3 days ago by
Basti
★ 1.5k • written 3 days ago by
Sara
▴ 220
1
vote
2
replies
202
views
Create clustered bar chart in R
R
ggplot
visualization
2 days ago by
Prangan
▴ 20
0
votes
0
replies
103
views
Picard's CollectGcBiasMetrics gc-bias plot- help with interpretation
picard
gc-bias
wes
3 days ago by
bompipi95
▴ 120
0
votes
2
replies
177
views
Repbase database and transposon sequence
TE
TSD
TIRs
Tpase
2 days ago by
manaswiniparija3
▴ 10
0
votes
4
replies
264
views
How do I add row names to pheatmap() when I am using a pre-normalized matrix?
pheatmap
heatmap
rna-seq
updated 2 days ago by
Trivas
★ 1.1k • written 3 days ago by
mgranada3
• 0
3
votes
5
replies
327
views
Uniprot API access to download .pdb files
PDB
API
Python
Uniprot
3 days ago by
jdrohan
• 0
1
vote
2
replies
228
views
highlight regions in a dot-plot?
figure
dotplot
alignment
synteny
3 days ago by
Buffo
★ 2.2k
0
votes
1
reply
142
views
Samtools index and sambamba-depth error?
linux
samtools
indexing
sambamba
updated 4 days ago by
Pierre Lindenbaum
154k • written 4 days ago by
MobiusT
▴ 10
0
votes
3
replies
236
views
PLINK not converting entire vcf to bed file
vcf
plink
genome1000
bed
3 days ago by
ethan.kreuzer
• 0
2
votes
3
replies
240
views
Using RNA-seq to detect pathogen sequences in host tissue
RNA-seq
4 days ago by
erik.burchard
▴ 10
0
votes
0
replies
106
views
Allowed Deviations in fixed bond length and bond angles in peptides from the typical values.
protein
bondangles
structure
fragbuilder
python
4 days ago by
physicsvigna
• 0
1
vote
2
replies
266
views
Identifying/Annotating Enhancers
enhancer
R
ENCODE
bedtools
updated 4 days ago by
ATpoint
72k • written 5 days ago by
cthangav
▴ 40
0
votes
1
reply
177
views
How to find marker genes for whole tissue from several different sub-tissue scRNAseq datasets
prediction
marker
scRNAseq
updated 4 days ago by
jv
★ 1.2k • written 5 days ago by
nickeener
▴ 50
1
vote
1
reply
184
views
merging structural variants from various callers into one vcf file (long read sequencing)
vcf
longread
updated 5 days ago by
LChart
2.6k • written 5 days ago by
Shaghayegh
▴ 20
0
votes
0
replies
126
views
extracting gencode 3utr and 5utr as part of R pipeline
5utr
3utr
5 days ago by
Agamemnon
▴ 80
1
vote
4
replies
317
views
Pre-processing for Agilent microarray data?
affymetrix
microarray
gene
agilent
rna
updated 5 hours ago by
solarchan7
• 0 • written 5 days ago by
survive
• 0
0
votes
2
replies
352
views
Trouble annotating heatmap with pheatmap. Error in annotation_col[colnames(mat), , drop = F] : subscript out of bounds
pheatmap
5 days ago by
oleksandra.kalnytska
• 0
0
votes
0
replies
116
views
statistical comparison between accession based on their origins
ttest
ANVOA
updated 5 days ago by
GenoMax
129k • written 5 days ago by
이정아(자연과학대학 화학생명분자과학부)
• 0
0
votes
0
replies
136
views
Error in .Call2("C_solve_user_SEW", refwidths, start, end, width, translate.negative.coord
maftools
updated 5 days ago by
Ram
39k • written 5 days ago by
alwayshope
▴ 20
1,000 results • Page
1 of 20
Recent Votes
A: how to count variants par sample per chromosome in a vcf file?
Comment: DEgs RNAseq
Answer: ScRNA data
Answer: extract all fasta sequence from db v5
Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, but the Max expression are near 20,000
Comment: Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, b
Answer: Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, b
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Recent Replies
Comment: best annotation approach for peaks
by
Chironex
▴ 40
Hi, I don't understand why, if I change TSS +1000/-1000 or +3000/-3000 or +10.000/-10.000 the number of regions annotated is the same. More…
Comment: I need help with a methyl array data analysis
by
Ahmad
▴ 10
Thank you, I will check it out
Comment: I need help with a methyl array data analysis
by
Ahmad
▴ 10
I actually have replicates. thank you
Comment: Why are some WES VCFs larger than others?
by
Jeremy Leipzig
21k
"It's not a gvcf with site coverage for the entire cohort, I called the variants myself" This sentence doesn't make sense to me. gVCFs are …
Comment: I need help with a methyl array data analysis
by
Dr William Klubinski
▴ 20
It seems the data appears to be in the beta value format (?), which represents the proportion of methylated probe intensity over the total …
Comment: problem of Global Biobank Meta-analysis Initiative
by
Fabio Marroni
★ 3.0k
Hi, can you please add the link to the page you mentioned? AFAIK some data have restricted access. Maybe full GWAS data belongs to this cat…
Comment: I need help with a methyl array data analysis
by
prasundutta87
▴ 650
Did you come across this? https://www.biostars.org/p/432297/ Regards, Prasun
Comment: Single cell chemistry
by
David
• 0
Unlikely, this data came from a experienced sequencing team, I 'm the inexperienced data analyst. I'm not sure if these samples are 10x, …
Comment: Single cell chemistry
by
David
• 0
Sorry, I did not explain it well. I did it before with other group of samples and different chemistry, so cellranger is working fine in my…
Comment: Do bioinformaticians often break molecular biologists' hearts by being the first
by
jli.ww
• 0
Based on my personal experience as a computational biologist, I was not a co-first author even if I prioritized the candidates from the pub…
Comment: DEgs RNAseq
by
Juan
• 0
Dear Delaney Sullivan, thanks, finlly I did my analisys
Answer: ScRNA data
by
Dr William Klubinski
▴ 20
It seems like your single cell RNAseq data does not already contain the Cell Barcodes or Unique Molecular Identifiers in the standard way -…
Comment: Demultiplexing bam file
by
GenoMax
129k
> Part of the header of the bam file So perhaps there are more samples. https://www.biostars.org/u/21477/: `grep "SM*" header_of_bam`. Is…
Answer: extract all fasta sequence from db v5
by
GenoMax
129k
If you need the fasta sequence download from NCBI here (146 GB zip compressed file) : https://ftp.ncbi.nih.gov/blast/db/FASTA/nr.gz
Comment: ScRNA data
by
GenoMax
129k
Is this from a SRA dataset? If so it is possible that you can get the correct information in `DataAccess` tab. Provide the accession number…
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