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1,000 results • Page
4 of 20
Sort: Rank
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Views
Votes
Replies
0
votes
0
replies
132
views
AttributeError: module 'scvelo' has no attribute 'pp
loomfile
scvelo
scipy
annData
numpy
14 days ago by
Kash
▴ 110
0
votes
1
reply
179
views
How to solve this RoseTTAFold colaboratory error?
modeling
Google
Colaboratory
RoseTTAFold
protein
updated 14 days ago by
Mensur Dlakic
★ 27k • written 15 days ago by
benguyarenbeyaz98
• 0
2
votes
2
replies
321
views
How to calculate identity percentage between proteins contained in a FASTA file?
protein
FASTA
alignment
updated 14 days ago by
Ram
43k • written 15 days ago by
v.berriosfarias
▴ 140
2
votes
9
replies
916
views
TCGA2STAT Error: Firehose connection
FIREHOSE
TCGA
updated 14 days ago by
LauferVA
4.2k • written 6 months ago by
Gnana
• 0
0
votes
11
replies
662
views
How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq libraries?
STARSolo
scRNA-seq
STAR
snRNA-seq
MGI
12 days ago by
atowns21
• 0
0
votes
1
reply
197
views
Find subcluster under a cluster, find differential genes in one cluster between 2 samples??
clustering
subclustering
scRNAseq
updated 15 days ago by
bk11
★ 2.4k • written 15 days ago by
alphaflylizard
• 0
0
votes
0
replies
114
views
The concept of co-occurrence network structure
co-occurence
microbiome
network
15 days ago by
ohtang7
▴ 40
0
votes
1
reply
192
views
Plot DNA methylation level of DMR on the basis of certain genes
rrbs
methylkit
updated 15 days ago by
GenoMax
142k • written 15 days ago by
Srinka
▴ 20
0
votes
5
replies
397
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap
alignment
minimap2
GRCh38
assembly
14 days ago by
njornet
▴ 20
0
votes
0
replies
115
views
Software to calculate RSCU, ENC other than codonw
rscu
codonw
updated 15 days ago by
Ram
43k • written 15 days ago by
SHREYA
• 0
0
votes
0
replies
118
views
Merging replicates from Encode project
CHIP-seq
encode
15 days ago by
Nurken
• 0
1
vote
3
replies
279
views
Filter BAM to keep only alignments at an interval, ignoring reads spliced over
samtools
bam
splicing
15 days ago by
WouterDeCoster
47k
1
vote
3
replies
316
views
some error in building kraken2 database
metagenome
kraken2
14 days ago by
Art1ess
• 0
0
votes
1
reply
194
views
Subset Seurat object from Xenium spatial data
Seurat
Xenium
Spatial
updated 15 days ago by
bk11
★ 2.4k • written 15 days ago by
Susmita Mandal
▴ 110
1
vote
1
reply
202
views
Failed kmer content
kmer
illumina
ngs
updated 15 days ago by
Ram
43k • written 15 days ago by
Kasturi
• 0
0
votes
0
replies
106
views
How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
HMMcopy
Copy-number-analysis
R
updated 15 days ago by
Ram
43k • written 15 days ago by
SSSJec
• 0
0
votes
1
reply
168
views
Identification of Transgene insertion sites
Transgene
Whole-Genome-Sequencing
transgene-sites
updated 16 days ago by
Ram
43k • written 16 days ago by
Cameron.walker9900
• 0
0
votes
8
replies
416
views
Error in cnetplot enrichplot package
R
updated 16 days ago by
Ram
43k • written 16 days ago by
Farhad
• 0
0
votes
0
replies
123
views
Pairwise alignment and Ka/Ks computation
Pairwise-Alignment
Genomics
Ka-Ks
updated 16 days ago by
Ram
43k • written 16 days ago by
maxime.policarpo
▴ 200
0
votes
0
replies
109
views
Analysis of the gene family of a genome.
Genome
gene-family
updated 16 days ago by
Ram
43k • written 16 days ago by
sansan_96
▴ 80
0
votes
0
replies
113
views
File with NCBI summary or Uniprot description
annotation
visualisation
NCBI
Uniprot
RNA
updated 15 days ago by
Ram
43k • written 16 days ago by
Amélie
• 0
0
votes
0
replies
218
views
Meta analysis of two GWAS summary statistics: one study is case-control and the other is quantitative
GWAS
Meta-analysis
updated 16 days ago by
Ram
43k • written 16 days ago by
Pine
▴ 10
1
vote
3
replies
2.5k
views
Problem to remove subset of patients with plink
plink
PED
updated 16 days ago by
chrchang523
10k • written 6.2 years ago by
Ginevra
▴ 10
1
vote
8
replies
496
views
Downsampling fastq file
downsample
fastq
8 days ago by
marco.barr
▴ 90
0
votes
1
reply
156
views
tbtool
tbtool
updated 16 days ago by
Ram
43k • written 16 days ago by
Raman
• 0
0
votes
10
replies
564
views
Low mapping rate with Salmon
RNA-seq
Salmon
Quantification
updated 8 days ago by
i.sudbery
19k • written 16 days ago by
Patadu94
• 0
0
votes
1
reply
148
views
Displaced fragment length distribution in ATAC-seq
ATAC-seq
nucleosome
fragment
updated 16 days ago by
ATpoint
82k • written 16 days ago by
enanoide
• 0
0
votes
0
replies
100
views
Help with finding conferences in immuno-informatics/virology
virology
conferences
immunology
16 days ago by
manaswwm
▴ 510
0
votes
0
replies
89
views
Filtering most similarly expressed gene (contrary to differential expression gene) with NOISeq?
NOIseq
15 days ago by
alifafiq1
• 0
0
votes
0
replies
95
views
How to get somatic variation based on RNA-seq data?
RNA-seq
variation
somatic
16 days ago by
feather-W
• 0
2
votes
4
replies
351
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
14 days ago by
samuelkalandarov2002
▴ 10
0
votes
0
replies
95
views
Annotating single cell data automatically
cell
annotation
single
16 days ago by
Gerard
• 0
0
votes
1
reply
184
views
RNA-seq bacteria contamination
RNA-seq
updated 16 days ago by
GenoMax
142k • written 16 days ago by
sh
• 0
0
votes
0
replies
88
views
Imputation advice
imputation
16 days ago by
kl
▴ 10
0
votes
0
replies
110
views
Trimming best practices for SNP calling
trimming
SNP
trimmomatic
16 days ago by
Enrique
• 0
0
votes
0
replies
86
views
Correct way of reducing predictive model complexity
lasso
glmnet
predictvemodeling
regression
16 days ago by
sativus
▴ 20
0
votes
0
replies
94
views
Difficulties getting **the adjacency file** necessary for **aracne2regulon** function.
VIPER
MARINA
ARACNe
16 days ago by
Biostars2200
• 0
0
votes
0
replies
152
views
CIRIquant: ValueError: file has no sequences defined (mode='rb') - is it SAM/BAM format? Consider opening with check_sq=False
Ciriquant
updated 16 days ago by
Carlo Yague
8.7k • written 16 days ago by
Atul K.
• 0
2
votes
5
replies
509
views
Marking duplicates using UMIs
Deduplication
UMI
updated 16 days ago by
i.sudbery
19k • written 17 days ago by
Lipika
• 0
0
votes
0
replies
151
views
How to extract the mutations specific to cancer after variant annotation
variant-annotation
updated 17 days ago by
Ram
43k • written 17 days ago by
sainavyav22
• 0
0
votes
0
replies
158
views
Bacterial genome alignment with mauve
Bacteria
mauve
genome
17 days ago by
rthapa
▴ 90
0
votes
0
replies
148
views
Reparametrization of .str (param penalty > 100) File from CGenFF for Ligand Simulation in GROMACS
Simulation
CGenFF
Gromacs
VMD
18 days ago by
Mamatha Y S
• 0
0
votes
2
replies
309
views
bam merging for archaic samples
samtools
bam
updated 17 days ago by
Ram
43k • written 18 days ago by
Matteo Ungaro
▴ 100
1
vote
0
replies
555
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
18 days ago by
mathavanbioinfo
▴ 90
0
votes
0
replies
236
views
Using samtools with GCS (google cloud storage) on a docker container seems to give "Protocol Not Supported" error
samtools
gcs
18 days ago by
abhishekghadge
• 0
2
votes
5
replies
761
views
what's the genomic location and name of gene responsible for orange and black patches in calico cats
genomes
updated 18 days ago by
Jesse
▴ 760 • written 19 days ago by
Ann
★ 2.4k
0
votes
0
replies
203
views
agilent microarray gpl data does not have gene symbol column
microarray
agilent
gpl
updated 19 days ago by
Ram
43k • written 19 days ago by
mja
• 0
0
votes
0
replies
204
views
scRNA Cluster frequency
CV
PCA
scRNA
Cluster-Frequency
19 days ago by
Nitin
• 0
0
votes
0
replies
197
views
Chemical structure validation
structure
cap
validation
metabolite
19 days ago by
Rodolfo Adrián
• 0
0
votes
1
reply
293
views
Downloading the raw microarray data from GEO
.gpr
microarray
.CEL
updated 19 days ago by
GenoMax
142k • written 19 days ago by
bioyas
▴ 10
1,000 results • Page
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Verify if all the components of a pathway are present in a genomes
removeBatchEffect explained using base R linear models
How to get number of characters (nucleotides) in fasta file
Answer: How can I analyze normalized expression data?
A: How to append the cell barcode and UMI information to the fastq header in paired
Answer: Decoding MM and ML tags in .SAM file
C: salmon quantification vs. star mapping
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Recent Replies
Comment: Filtering Multi-sample VCF file for all except one Genotype
by
schmince
• 0
I probably got some of the vocabulary wrong. I thought that "Dom HOR2932 HOR3036 HOR3726 KWSBambina Rec S42IL_124" were representing my ge…
Comment: featureCounts output assigned value higher than and HISAT2 mapping.
by
Ram
43k
It's featureCount**s**, not featureCount. I've edited your post and fixed all mentions of featureCounts.
Comment: kinannote software installation problems
by
Emanoelle
• 0
Hey, I know it's been 5 years but I have the same issue. When I run the test the software is unable to perform and always deliver the follo…
Comment: STAR aligner error
by
Ram
43k
If they can't help you, we probably can't do much either. But we can optimize your STAR command. BAM SortedByCoordinate is the worst settin…
Answer: Obtaining Infinium Methylation450K manifest for hg38
by
marco.barr
▴ 90
Hi, you can check it from github here: [https://zwdzwd.github.io/InfiniumAnnotation][1]. I don't know if this is what you are looking fo…
Comment: RNA seq analysis
by
ATpoint
82k
It makes absolutely no sense to conduct such an analysis. I strongly discourage you to even start with it. Results will be utterly nonsense…
Comment: Differentail gene expression results
by
swbarnes2
14k
Cross-posted: https://support.bioconductor.org/p/9158194/
Answer: Seurat V5 integration
by
Bastien Hervé
5.3k
It will depend on your context and question. I guess you will want to compare gene expression between your conditions within cell types …
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by
Adam
▴ 30
You get this error when you try to compare two data frames that have different dimensions. Try using the traceback() command to figure out …
Comment: Applying the metacell2 algorithm using python
by
Wayne
★ 2.0k
Sorry, this was supposed to be a comment appended to the chain above. I didn't mean to post as an answer.
Comment: Exploring Diet Effects in Single-Cell RNA Sequencing
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> when I looked at the expression of aging marker genes, I noticed that diets sequenced in the same batch appeared more similar. How simil…
Answer: How to compare compare two Sam files to check mapping
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DavidStreid
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Curious if others have also benefited from Picard's [CompareSAMs][1] tool. Seems to do exactly what Madhu has requested. If the headers …
Answer: How/where can I get fungal mitogenome data for analysis?
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alex.zaccaron
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The best repository is probably NCBI Organelle Resources. You can search by taxonomy and download their mt genomes. Check it out for fungi…
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142k
Good place to start looking: https://www.ncbi.nlm.nih.gov/genome/organelle/ Mitochondrial genomes may also be included in full genomes so …
Comment: Correlating Bulk Differential Expression with quantitative
by
Nicholas
• 0
Thank you! I will give it a shot
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