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1,000 results • Page
5 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
175
views
Why not use iBAQ for calculating differential abundance of proteins?
protein
maxquant
20 days ago by
Aspire
▴ 330
0
votes
4
replies
413
views
Highest variable features in single cell data
single-cell
8 days ago by
carolofharvest
▴ 40
1
vote
3
replies
448
views
PCA plot
DESeq2
PCAplot
updated 17 days ago by
LauferVA
4.2k • written 21 days ago by
Aaliya
▴ 10
0
votes
0
replies
171
views
Can you give me an example of a small globular protein (PDB) that has disordered alpha-carbons?
protein
pdb
alpha-carbon
21 days ago by
4fzcgueyp5
• 0
0
votes
2
replies
309
views
Annovar using R package
Annovar
gnomAD
R
20 days ago by
DKA
▴ 40
0
votes
5
replies
438
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
updated 20 days ago by
GenoMax
142k • written 21 days ago by
Bertalan_Takacs
▴ 90
0
votes
0
replies
167
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA
GDCprepare
updated 21 days ago by
Ram
43k • written 21 days ago by
glaciya2018
• 0
0
votes
0
replies
328
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome
PGAP
NCBI
roary
Prokka
21 days ago by
pramach1
▴ 40
0
votes
1
reply
206
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate
GEMMA
GWAS
updated 21 days ago by
Sofia
• 0 • written 21 days ago by
mawigoj318
• 0
0
votes
0
replies
167
views
Sequence BLAST in plus/minus and plus/plus
blast
CRISPR
strand
sequencing
21 days ago by
salias
• 0
0
votes
5
replies
457
views
different FeatureCounts output for the same data
fpkm
Counts
Rsubread
rna-seq
updated 18 days ago by
Istvan Albert
100k • written 21 days ago by
sehriban.buyukkilic
▴ 10
0
votes
0
replies
141
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq
single-cell
suppa
alternative-splicing
updated 21 days ago by
Ram
43k • written 21 days ago by
newuser2024
• 0
1
vote
2
replies
280
views
alignment result
RNA-seq
samtools
hisat2
21 days ago by
ahmad.sajad4541
• 0
0
votes
0
replies
139
views
AttributeError: module 'scvelo' has no attribute 'pp
loomfile
scvelo
scipy
annData
numpy
22 days ago by
Kash
▴ 110
0
votes
1
reply
189
views
How to solve this RoseTTAFold colaboratory error?
modeling
Google
Colaboratory
RoseTTAFold
protein
updated 22 days ago by
Mensur Dlakic
★ 27k • written 22 days ago by
benguyarenbeyaz98
• 0
2
votes
2
replies
334
views
How to calculate identity percentage between proteins contained in a FASTA file?
protein
FASTA
alignment
updated 21 days ago by
Ram
43k • written 22 days ago by
v.berriosfarias
▴ 140
2
votes
9
replies
936
views
TCGA2STAT Error: Firehose connection
FIREHOSE
TCGA
updated 22 days ago by
LauferVA
4.2k • written 7 months ago by
Gnana
• 0
0
votes
11
replies
707
views
How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq libraries?
STARSolo
scRNA-seq
STAR
snRNA-seq
MGI
20 days ago by
atowns21
• 0
0
votes
1
reply
211
views
Find subcluster under a cluster, find differential genes in one cluster between 2 samples??
clustering
subclustering
scRNAseq
updated 22 days ago by
bk11
★ 2.4k • written 22 days ago by
alphaflylizard
• 0
0
votes
0
replies
120
views
The concept of co-occurrence network structure
co-occurence
microbiome
network
22 days ago by
ohtang7
▴ 40
0
votes
1
reply
205
views
Plot DNA methylation level of DMR on the basis of certain genes
rrbs
methylkit
updated 22 days ago by
GenoMax
142k • written 22 days ago by
Srinka
▴ 20
0
votes
5
replies
425
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap
alignment
minimap2
GRCh38
assembly
21 days ago by
njornet
▴ 20
0
votes
0
replies
124
views
Software to calculate RSCU, ENC other than codonw
rscu
codonw
updated 22 days ago by
Ram
43k • written 22 days ago by
SHREYA
• 0
0
votes
0
replies
126
views
Merging replicates from Encode project
CHIP-seq
encode
22 days ago by
Nurken
• 0
1
vote
3
replies
299
views
Filter BAM to keep only alignments at an interval, ignoring reads spliced over
samtools
bam
splicing
22 days ago by
WouterDeCoster
47k
1
vote
3
replies
334
views
some error in building kraken2 database
metagenome
kraken2
22 days ago by
Art1ess
• 0
0
votes
1
reply
211
views
Subset Seurat object from Xenium spatial data
Seurat
Xenium
Spatial
updated 22 days ago by
bk11
★ 2.4k • written 22 days ago by
Susmita Mandal
▴ 110
1
vote
1
reply
212
views
Failed kmer content
kmer
illumina
ngs
updated 22 days ago by
Ram
43k • written 22 days ago by
Kasturi
• 0
0
votes
0
replies
115
views
How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
HMMcopy
Copy-number-analysis
R
updated 22 days ago by
Ram
43k • written 23 days ago by
SSSJec
• 0
0
votes
1
reply
174
views
Identification of Transgene insertion sites
Transgene
Whole-Genome-Sequencing
transgene-sites
updated 23 days ago by
Ram
43k • written 23 days ago by
Cameron.walker9900
• 0
0
votes
8
replies
454
views
Error in cnetplot enrichplot package
R
updated 23 days ago by
Ram
43k • written 23 days ago by
Farhad
• 0
0
votes
0
replies
128
views
Pairwise alignment and Ka/Ks computation
Pairwise-Alignment
Genomics
Ka-Ks
updated 23 days ago by
Ram
43k • written 23 days ago by
maxime.policarpo
▴ 200
0
votes
0
replies
113
views
Analysis of the gene family of a genome.
Genome
gene-family
updated 23 days ago by
Ram
43k • written 23 days ago by
sansan_96
▴ 90
0
votes
0
replies
116
views
File with NCBI summary or Uniprot description
annotation
visualisation
NCBI
Uniprot
RNA
updated 22 days ago by
Ram
43k • written 23 days ago by
Amélie
• 0
0
votes
0
replies
222
views
Meta analysis of two GWAS summary statistics: one study is case-control and the other is quantitative
GWAS
Meta-analysis
updated 23 days ago by
Ram
43k • written 23 days ago by
Pine
▴ 20
1
vote
3
replies
2.5k
views
Problem to remove subset of patients with plink
plink
PED
updated 23 days ago by
chrchang523
10k • written 6.2 years ago by
Ginevra
▴ 10
1
vote
8
replies
531
views
Downsampling fastq file
downsample
fastq
15 days ago by
marco.barr
▴ 120
0
votes
1
reply
168
views
tbtool
tbtool
updated 23 days ago by
Ram
43k • written 23 days ago by
Raman
• 0
0
votes
10
replies
608
views
Low mapping rate with Salmon
RNA-seq
Salmon
Quantification
updated 15 days ago by
i.sudbery
19k • written 23 days ago by
Patadu94
• 0
0
votes
1
reply
159
views
Displaced fragment length distribution in ATAC-seq
ATAC-seq
nucleosome
fragment
updated 23 days ago by
ATpoint
82k • written 23 days ago by
enanoide
• 0
0
votes
0
replies
105
views
Help with finding conferences in immuno-informatics/virology
virology
conferences
immunology
23 days ago by
manaswwm
▴ 510
0
votes
0
replies
96
views
Filtering most similarly expressed gene (contrary to differential expression gene) with NOISeq?
NOIseq
22 days ago by
alifafiq1
• 0
0
votes
0
replies
102
views
How to get somatic variation based on RNA-seq data?
RNA-seq
variation
somatic
23 days ago by
feather-W
• 0
2
votes
4
replies
375
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
21 days ago by
samuelkalandarov2002
▴ 10
0
votes
0
replies
98
views
Annotating single cell data automatically
cell
annotation
single
23 days ago by
Gerard
• 0
0
votes
1
reply
199
views
RNA-seq bacteria contamination
RNA-seq
updated 23 days ago by
GenoMax
142k • written 23 days ago by
sh
• 0
0
votes
0
replies
96
views
Imputation advice
imputation
23 days ago by
kl
▴ 10
0
votes
0
replies
117
views
Trimming best practices for SNP calling
trimming
SNP
trimmomatic
23 days ago by
Enrique
• 0
0
votes
0
replies
91
views
Correct way of reducing predictive model complexity
lasso
glmnet
predictvemodeling
regression
23 days ago by
sativus
▴ 20
0
votes
0
replies
96
views
Difficulties getting **the adjacency file** necessary for **aracne2regulon** function.
VIPER
MARINA
ARACNe
23 days ago by
Biostars2200
• 0
1,000 results • Page
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Comment: How to calculate coverage of Nanopore long read data?
Answer: In one PCA plot, can I calculate the percentage of different factors that contri
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Recent Replies
Answer: Converting Degree Minutes (DM) to Decimal Degrees (DD) using python script
by
kuttibiotech2009
▴ 30
Hello friends, Thank you for your feedback. I understand that the post may not directly relate to bioinformatics. My aim was to share …
Comment: how to treat the replicates while performing WGCNA
by
andres.firrincieli
3.6k
You do not merge the MEs. It is quite normal that some modules have noisy eigengenes (MEs); WGCNA is an unsupervised analysis overall. By …
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
my blast is latest version 2.15. I don't know what you want me to see in this link.
Answer: scRNAseq quality control weird double curve in nFeature vs nCount plot
by
valdirbarth
▴ 20
Is it possible that the cells that have their VDJ sequenced, those VDJ reads are not contributing to new genes detected? So you might be …
Comment: ggrepel function: geom_text_repel()
by
ntsopoul
▴ 60
The plot looks confusing, chek the documentation there is an attribute called force. If you reduce the value you should get better results.…
Comment: Sequencing Depth (Read Depth) Calculations
by
LucisTheFather
• 0
Understood! Gonna try those two!
Comment: Sequencing Depth (Read Depth) Calculations
by
LucisTheFather
• 0
Thank u very much!
Comment: How to extract cells of different species after mapping with combined genome?
by
GenoMax
142k
You have used the tag `snRNAseq`. I am not familiar with singleron tech but if you have sequence data you may be able to use `xenome` or `b…
Comment: bbmerge (bbmap) ~ error with insert size file output
by
GenoMax
142k
It may be best to go back to the original data and then do `bbmerge.sh` on it to get original insert size estimates (before any operations …
Comment: bbmerge (bbmap) ~ error with insert size file output
by
chrisk
• 0
Hi Brian, Thank you and apologies for the extra future revision works. Out of curiosity we disabled neural networks 'nn=f' and the file o…
Comment: bbmerge (bbmap) ~ error with insert size file output
by
chrisk
• 0
Hi Genomax, This is the thread: https://www.biostars.org/p/9582467/ Cheers, Chris
Comment: Inquiry about deseq2 transformation
by
Chen
• 0
that's helpful, thanks :)
Comment: bbmerge (bbmap) ~ error with insert size file output
by
Brian Bushnell
20k
Ah, this is a little embarrassing; those are the vectors for the neural network. I overloaded a field that was being used for the insert s…
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kl
▴ 10
Thanks - I corrected it. It doesn't seem to annotate. I converted to binary after which is what is shown below. It is not the output I want…
Comment: Filtering VCF files based on VAF giving incorrect results
by
Arton
▴ 10
These are valid questions. Does your code address the concerns you've raised? From what I understand, FilterVcf is primarily designed for h…
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