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1,000 results • Page
1 of 20
Sort: Rank
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Votes
Replies
0
votes
0
replies
6
views
WGCNA preservation analysis
WGCNA
preservation
10 minutes ago by
michael.flower.14
▴ 180
0
votes
1
reply
44
views
Heatmap and rna-seq
RNA-Seq
Heatmap
and
updated 46 minutes ago by
Basti
★ 2.0k • written 3 hours ago by
qudrat.nii
▴ 10
0
votes
0
replies
37
views
Seurat merge and batch correction
Seurat
4 hours ago by
sooni
▴ 20
0
votes
0
replies
25
views
How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
HMMcopy
R
Copy-number-analysis
gc.wig
genome
5 hours ago by
SSSJec
• 0
0
votes
1
reply
86
views
Identification of Transgene insertion sites
Transgene
Whole-Genome-Sequencing
transgene-sites
updated 13 hours ago by
Ram
43k • written 13 hours ago by
Cameron.walker9900
• 0
0
votes
8
replies
207
views
Error in cnetplot enrichplot package
R
updated 11 hours ago by
Ram
43k • written 13 hours ago by
Farhad
• 0
0
votes
0
replies
60
views
Pairwise alignment and Ka/Ks computation
Pairwise-Alignment
Genomics
Ka-Ks
updated 13 hours ago by
Ram
43k • written 13 hours ago by
maxime.policarpo
▴ 200
0
votes
0
replies
48
views
Analysis of the gene family of a genome.
Genome
gene-family
updated 14 hours ago by
Ram
43k • written 14 hours ago by
sansan_96
▴ 80
0
votes
2
replies
105
views
Should I use unpaired reads from trimmomatic
RNA-seq
QC
Trimmomatic
12 hours ago by
dxj294
• 0
0
votes
0
replies
50
views
File with NCBI summary or Uniprot description
Refseq
function
NCBI
Uniprot
protein
14 hours ago by
Amélie
• 0
0
votes
0
replies
64
views
Meta analysis of two GWAS summary statistics: one study is case-control and the other is quantitative
GWAS
Meta-analysis
updated 14 hours ago by
Ram
43k • written 14 hours ago by
Oak
▴ 10
1
vote
3
replies
2.4k
views
Problem to remove subset of patients with plink
plink
PED
updated 11 hours ago by
chrchang523
10k • written 6.1 years ago by
Ginevra
▴ 10
0
votes
0
replies
59
views
Blasting two protein sequences vs two nucleotide sequences
gene-hunting
blast
updated 16 hours ago by
GenoMax
141k • written 16 hours ago by
Abeer
• 0
0
votes
1
reply
98
views
tbtool
tbtool
updated 16 hours ago by
Ram
43k • written 17 hours ago by
Raman
• 0
0
votes
2
replies
144
views
Low mapping rate with Salmon
RNA-seq
Salmon
Quantification
updated 15 hours ago by
i.sudbery
19k • written 18 hours ago by
Patadu94
• 0
0
votes
2
replies
120
views
clustalo - align milions of short seq, memory issue
memory
clustalo
updated 13 hours ago by
Mensur Dlakic
★ 27k • written 19 hours ago by
emmanouil.a
▴ 120
0
votes
1
reply
89
views
Displaced fragment length distribution in ATAC-seq
ATAC-seq
nucleosome
fragment
updated 19 hours ago by
ATpoint
81k • written 19 hours ago by
enanoide
• 0
0
votes
0
replies
61
views
Help with finding conferences in immuno-informatics/virology
virology
conferences
immunology
20 hours ago by
manaswwm
▴ 490
0
votes
0
replies
49
views
Filtering most similarly expressed gene (contrary to differential expression gene) with NOISeq?
NOIseq
20 hours ago by
alifafiq1
• 0
0
votes
0
replies
63
views
How to get somatic variation based on RNA-seq data?
RNA-seq
variation
somatic
21 hours ago by
feather-W
• 0
2
votes
1
reply
103
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
updated 17 hours ago by
GenoMax
141k • written 21 hours ago by
samuelkalandarov2002
▴ 10
0
votes
0
replies
61
views
Annotating single cell data automatically
cell
annotation
single
21 hours ago by
Gerard
• 0
0
votes
1
reply
119
views
RNA-seq bacteria contamination
RNA-seq
updated 20 hours ago by
GenoMax
141k • written 22 hours ago by
sh
• 0
0
votes
0
replies
60
views
Imputation advice
imputation
23 hours ago by
kl
▴ 10
0
votes
0
replies
75
views
Trimming best practices for SNP calling
trimming
SNP
trimmomatic
1 day ago by
Enrique
• 0
0
votes
0
replies
64
views
Correct way of reducing predictive model complexity
lasso
glmnet
predictvemodeling
regression
1 day ago by
sativus
▴ 20
0
votes
0
replies
67
views
Difficulties getting **the adjacency file** necessary for **aracne2regulon** function.
VIPER
MARINA
ARACNe
1 day ago by
Biostars2200
• 0
0
votes
0
replies
100
views
CIRIquant: ValueError: file has no sequences defined (mode='rb') - is it SAM/BAM format? Consider opening with check_sq=False
Ciriquant
updated 1 day ago by
Carlo Yague
8.7k • written 1 day ago by
Atul K.
• 0
1
vote
5
replies
386
views
Marking duplicates using UMIs
Deduplication
UMI
updated 23 hours ago by
i.sudbery
19k • written 2 days ago by
Lipika
• 0
0
votes
0
replies
130
views
How to extract the mutations specific to cancer after variant annotation
variant-annotation
updated 1 day ago by
Ram
43k • written 2 days ago by
sainavyav22
• 0
0
votes
0
replies
129
views
Bacterial genome alignment with mauve
Bacteria
mauve
genome
2 days ago by
rthapa
▴ 90
0
votes
0
replies
122
views
Reparametrization of .str (param penalty > 100) File from CGenFF for Ligand Simulation in GROMACS
Simulation
CGenFF
Gromacs
VMD
2 days ago by
Mamatha Y S
• 0
0
votes
2
replies
237
views
bam merging for archaic samples
samtools
bam
updated 1 day ago by
Ram
43k • written 2 days ago by
Matteo Ungaro
▴ 100
1
vote
0
replies
508
views
The majority of the sequences in Trinity ID do not start from start codons. Can the sequences still be used for primer design and validation?
Primers
TRINITY
3 days ago by
mathavanbioinfo
▴ 90
0
votes
0
replies
200
views
Using samtools with GCS (google cloud storage) on a docker container seems to give "Protocol Not Supported" error
samtools
gcs
2 days ago by
abhishekghadge
• 0
2
votes
5
replies
655
views
what's the genomic location and name of gene responsible for orange and black patches in calico cats
genomes
updated 2 days ago by
Jesse
▴ 740 • written 3 days ago by
Ann
★ 2.4k
0
votes
0
replies
178
views
agilent microarray gpl data does not have gene symbol column
microarray
agilent
gpl
updated 3 days ago by
Ram
43k • written 3 days ago by
mja
• 0
0
votes
0
replies
180
views
scRNA Cluster frequency
CV
PCA
scRNA
Cluster-Frequency
3 days ago by
Nitin
• 0
0
votes
0
replies
179
views
absolute path for symbolic links in Snakefile
Snakemake
updated 3 days ago by
Ram
43k • written 3 days ago by
yifangt86
▴ 60
0
votes
0
replies
174
views
Chemical structure validation
structure
cap
validation
metabolite
3 days ago by
Rodolfo Adrián
• 0
0
votes
1
reply
250
views
Downloading the raw microarray data from GEO
.gpr
microarray
.CEL
updated 3 days ago by
GenoMax
141k • written 3 days ago by
bioyas
▴ 10
0
votes
0
replies
195
views
Copy number variation plot
Copy-number-variation
genomics
updated 3 days ago by
Ram
43k • written 3 days ago by
Emmi
• 0
0
votes
0
replies
168
views
SNP calling with ANGSD and ngsLD. How many SNPs?
lcwgs
ngsTools
ANGSD
genomics
3 days ago by
DanielEB_fisk
▴ 20
0
votes
1
reply
269
views
Could you please assist in identifying this cluster?
single-cell
updated 3 days ago by
Ram
43k • written 3 days ago by
Kazo
• 0
0
votes
0
replies
188
views
Conversion to tree format
PLINK
bed
Figtree
SplitsTree
updated 3 days ago by
Ram
43k • written 3 days ago by
Dinmukhamed
• 0
0
votes
0
replies
188
views
miRDeep2: How to get the read counts
mirdeep2
3 days ago by
Atul K.
• 0
0
votes
0
replies
194
views
Lncipedia GTF file error
Proteomics
updated 3 days ago by
Ram
43k • written 4 days ago by
atharvakarkare14
▴ 10
3
votes
3
replies
448
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
updated 3 days ago by
swbarnes2
14k • written 4 days ago by
joe
▴ 510
0
votes
2
replies
514
views
How to get the reference panel for UKBB
UKBB
GWAS
clump
4 days ago by
航太郎
• 0
0
votes
0
replies
205
views
create genewise sync file in popoolation
popoolation
updated 4 days ago by
GenoMax
141k • written 4 days ago by
N.Y.Wiyana-Hewage
• 0
1,000 results • Page
1 of 20
Recent Votes
Comment: Correlation for ATAC-Seq and Chip-Seq
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Comment: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: What is the real meaning of relative enrichment/peak height of ChIP-seq tracks?
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michael.flower.14
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▴ 10
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★ 27k
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Recent Replies
Answer: Plots for DNA methylation data
by
Basti
★ 2.0k
Yes you can use ggplot2 to create your own plots from a table of results from a differential methylation analysis. You just need to adapt a…
Comment: Heatmap and rna-seq
by
Basti
★ 2.0k
This forum is not dedicated to this type of request, there are many online tutorials for creating heatmaps accessible with simple internet …
Answer: python file for coding potential calculator
by
atharvakarkare14
▴ 10
Download the CPC2 tool supported by python 3 from here [https://github.com/gao-lab/CPC2_standalone/releases/tag/v1.0.1][1]. Then follow …
Comment: Redirection of Duplicate PMIDs
by
LauferVA
4.2k
let me know the scope and scale of the request (e.g. I need to do this for every record in Pubmed) and can help
Comment: Redirection of Duplicate PMIDs
by
LauferVA
4.2k
how is this query itself originating?
Comment: Redirection of Duplicate PMIDs
by
dominickd
• 0
I was able to come up with a workaround using the requests library: import requests pmid = 30134295 url = 'https://pubmed.ncbi…
Comment: What is the real meaning of relative enrichment/peak height of ChIP-seq tracks?
by
HyperEvo
• 0
Thanks for you answer! Actually I have already filtered my peak according to blacklist by bedtools. You mean it's meaningless to compare on…
Answer: Redirection of Duplicate PMIDs
by
GenoMax
141k
More than likely not since the database query seems to work for the redirected PMID but not the original. $ esearch -db pubmed -query …
Comment: DYH17 Structure Prediction
by
anasjamshed
▴ 120
Blast showed PDB: 8J07_n9(human) as best template with 62.99%. I also used swissmodel to model the protein and it showed: https://swissmod…
Comment: How to slice a gvcf file with tabix?
by
Pierre Lindenbaum
161k
No, in haplotypecaller
Comment: How to slice a gvcf file with tabix?
by
Sd
• 0
Then what is the best way to do slicing for 1Mb windows? Doing `--intervals` in the GenomicsDBImport?
Comment: How to slice a gvcf file with tabix?
by
Pierre Lindenbaum
161k
> What is your suggestion to run GenomicsDBImport efficiently? call the GVCF by slices eg: chr1:1000000-2000000<br> run GenomicsDBImport …
Comment: How to slice a gvcf file with tabix?
by
Sd
• 0
I want to run gatk `GenomicsDBImport` tool to build a GenomicsDB. I want to slice it to reduce the computation time since I have 1300 gvcf …
Comment: Problem to remove subset of patients with plink
by
chrchang523
10k
The first step has to be taken outside of PLINK here. E.g. append "_1" and "_2" to the duplicated IDs in the .ped or .fam file, then menti…
Comment: Error in cnetplot enrichplot package
by
Ram
43k
Show us the exact call to `cnetplot()` with a sample of all input parameters. Did you compare notes with your friend?
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