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1,000 results • Page
1 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
27
views
AttributeError: module 'scvelo' has no attribute 'pp
loomfile
scvelo
scipy
annData
numpy
3 hours ago by
Kash
▴ 110
0
votes
0
replies
27
views
Wilcox test using data slot (log normalized count values) of scRNA-seq between two groups
scRNAseq
3 hours ago by
mropri
▴ 150
0
votes
0
replies
37
views
How to solve this RoseTTAFold colaboratory error?
modeling
Google
Colaboratory
RoseTTAFold
protein
4 hours ago by
benguyarenbeyaz98
• 0
0
votes
1
reply
68
views
How to calculate identity percentage between proteins contained in a FASTA file?
percentage
FASTA
alignment
identity
updated 3 hours ago by
GenoMax
141k • written 5 hours ago by
v.berriosfarias
▴ 140
2
votes
9
replies
703
views
TCGA2STAT Error: Firehose connection
FIREHOSE
TCGA
updated 1 hour ago by
LauferVA
4.2k • written 6 months ago by
Gnana
• 0
0
votes
9
replies
227
views
How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq libraries?
snRNA-seq
STARSolo
scRNA-seq
STAR
updated 3 hours ago by
GenoMax
141k • written 7 hours ago by
atowns21
• 0
0
votes
1
reply
82
views
Find subcluster under a cluster, find differential genes in one cluster between 2 samples??
clustering
subclustering
scRNAseq
updated 6 hours ago by
bk11
★ 2.3k • written 7 hours ago by
alphaflylizard
• 0
0
votes
1
reply
69
views
How to trim transcripts using information from NCBI contamination screen report
RNAseq
assembly
transcriptome
contamination
updated 8 hours ago by
Pierre Lindenbaum
161k • written 9 hours ago by
Lada
▴ 30
0
votes
0
replies
47
views
The concept of co-occurrence network structure
co-occurence
microbiome
network
10 hours ago by
ohtang7
▴ 40
0
votes
1
reply
90
views
Plot DNA methylation level of DMR on the basis of certain genes
rrbs
methylkit
updated 13 hours ago by
GenoMax
141k • written 13 hours ago by
Srinka
▴ 20
0
votes
4
replies
179
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap
alignment
minimap2
GRCh38
assembly
updated 11 hours ago by
GenoMax
141k • written 13 hours ago by
njornet
▴ 20
0
votes
0
replies
53
views
Software to calculate RSCU, ENC other than codonw
rscu
codonw
updated 11 hours ago by
Ram
43k • written 14 hours ago by
SHREYA
• 0
0
votes
0
replies
60
views
Merging replicates from Encode project
CHIP-seq
encode
14 hours ago by
Nurken
• 0
1
vote
3
replies
158
views
Filter BAM to keep only alignments at an interval, ignoring reads spliced over
samtools
bam
splicing
15 hours ago by
WouterDeCoster
47k
0
votes
3
replies
144
views
some error in building kraken2 database
metagenome
kraken2
43 minutes ago by
Art1ess
• 0
0
votes
1
reply
93
views
Subset Seurat object from Xenium spatial data
Seurat
Xenium
Spatial
updated 11 hours ago by
bk11
★ 2.3k • written 16 hours ago by
Susmita Mandal
▴ 110
1
vote
1
reply
126
views
Failed kmer content
kmer
illumina
ngs
updated 11 hours ago by
Ram
43k • written 19 hours ago by
Kasturi
• 0
0
votes
2
replies
154
views
Heatmap and rna-seq
RNA-Seq
Heatmap
and
updated 4 hours ago by
Istvan Albert
100k • written 20 hours ago by
qudrat.nii
▴ 10
0
votes
0
replies
60
views
How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
HMMcopy
Copy-number-analysis
R
updated 10 hours ago by
Ram
43k • written 22 hours ago by
SSSJec
• 0
0
votes
1
reply
114
views
Identification of Transgene insertion sites
Transgene
Whole-Genome-Sequencing
transgene-sites
updated 1 day ago by
Ram
43k • written 1 day ago by
Cameron.walker9900
• 0
0
votes
8
replies
251
views
Error in cnetplot enrichplot package
R
updated 1 day ago by
Ram
43k • written 1 day ago by
Farhad
• 0
0
votes
0
replies
89
views
Pairwise alignment and Ka/Ks computation
Pairwise-Alignment
Genomics
Ka-Ks
updated 1 day ago by
Ram
43k • written 1 day ago by
maxime.policarpo
▴ 200
0
votes
0
replies
76
views
Analysis of the gene family of a genome.
Genome
gene-family
updated 1 day ago by
Ram
43k • written 1 day ago by
sansan_96
▴ 80
0
votes
0
replies
82
views
File with NCBI summary or Uniprot description
annotation
visualisation
NCBI
Uniprot
RNA
updated 11 hours ago by
Ram
43k • written 1 day ago by
Amélie
• 0
0
votes
0
replies
131
views
Meta analysis of two GWAS summary statistics: one study is case-control and the other is quantitative
GWAS
Meta-analysis
updated 1 day ago by
Ram
43k • written 1 day ago by
Oak
▴ 10
1
vote
3
replies
2.4k
views
Problem to remove subset of patients with plink
plink
PED
updated 1 day ago by
chrchang523
10k • written 6.1 years ago by
Ginevra
▴ 10
1
vote
5
replies
221
views
Downsampling fastq file
downsample
fastq
updated 1 day ago by
Ram
43k • written 1 day ago by
marco.barr
▴ 80
0
votes
1
reply
115
views
tbtool
tbtool
updated 1 day ago by
Ram
43k • written 1 day ago by
Raman
• 0
0
votes
2
replies
168
views
Low mapping rate with Salmon
RNA-seq
Salmon
Quantification
updated 1 day ago by
i.sudbery
19k • written 1 day ago by
Patadu94
• 0
0
votes
2
replies
137
views
clustalo - align milions of short seq, memory issue
memory
clustalo
updated 1 day ago by
Mensur Dlakic
★ 27k • written 1 day ago by
emmanouil.a
▴ 120
0
votes
1
reply
109
views
Displaced fragment length distribution in ATAC-seq
ATAC-seq
nucleosome
fragment
updated 1 day ago by
ATpoint
81k • written 1 day ago by
enanoide
• 0
0
votes
0
replies
76
views
Help with finding conferences in immuno-informatics/virology
virology
conferences
immunology
1 day ago by
manaswwm
▴ 490
0
votes
0
replies
66
views
Filtering most similarly expressed gene (contrary to differential expression gene) with NOISeq?
NOIseq
15 hours ago by
alifafiq1
• 0
0
votes
0
replies
76
views
How to get somatic variation based on RNA-seq data?
RNA-seq
variation
somatic
1 day ago by
feather-W
• 0
2
votes
3
replies
185
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
updated 16 hours ago by
Pierre Lindenbaum
161k • written 1 day ago by
samuelkalandarov2002
▴ 10
0
votes
0
replies
71
views
Annotating single cell data automatically
cell
annotation
single
1 day ago by
Gerard
• 0
0
votes
1
reply
131
views
RNA-seq bacteria contamination
RNA-seq
updated 1 day ago by
GenoMax
141k • written 1 day ago by
sh
• 0
0
votes
0
replies
65
views
Imputation advice
imputation
1 day ago by
kl
▴ 10
0
votes
0
replies
80
views
Trimming best practices for SNP calling
trimming
SNP
trimmomatic
1 day ago by
Enrique
• 0
0
votes
0
replies
67
views
Correct way of reducing predictive model complexity
lasso
glmnet
predictvemodeling
regression
1 day ago by
sativus
▴ 20
0
votes
0
replies
71
views
Difficulties getting **the adjacency file** necessary for **aracne2regulon** function.
VIPER
MARINA
ARACNe
1 day ago by
Biostars2200
• 0
0
votes
0
replies
105
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
2
votes
5
replies
410
views
Marking duplicates using UMIs
Deduplication
UMI
updated 1 day ago by
i.sudbery
19k • written 3 days ago by
Lipika
• 0
0
votes
0
replies
133
views
How to extract the mutations specific to cancer after variant annotation
variant-annotation
updated 2 days ago by
Ram
43k • written 3 days ago by
sainavyav22
• 0
0
votes
0
replies
136
views
Bacterial genome alignment with mauve
Bacteria
mauve
genome
3 days ago by
rthapa
▴ 90
0
votes
0
replies
127
views
Reparametrization of .str (param penalty > 100) File from CGenFF for Ligand Simulation in GROMACS
Simulation
CGenFF
Gromacs
VMD
3 days ago by
Mamatha Y S
• 0
0
votes
2
replies
242
views
bam merging for archaic samples
samtools
bam
updated 2 days ago by
Ram
43k • written 3 days ago by
Matteo Ungaro
▴ 100
1
vote
0
replies
529
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
204
views
Using samtools with GCS (google cloud storage) on a docker container seems to give "Protocol Not Supported" error
samtools
gcs
3 days ago by
abhishekghadge
• 0
2
votes
5
replies
668
views
what's the genomic location and name of gene responsible for orange and black patches in calico cats
genomes
updated 3 days ago by
Jesse
▴ 740 • written 4 days ago by
Ann
★ 2.4k
1,000 results • Page
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Recent Votes
Comment: TCGA2STAT Error: Firehose connection
Answer: HaplotypeCaller - only SNPs
Comment: Bwa sampe - BGI
Comment: Redirection of Duplicate PMIDs
Answer: Redirection of Duplicate PMIDs
A: Should I Remove All Positions Containing A Gap In A Multiple Alignment Prior To
Should I Remove All Positions Containing A Gap In A Multiple Alignment Prior To Creating A Phylogenetic Tree?
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Recent Awards •
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Popular Question
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v.berriosfarias
▴ 140
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to
AdviceSeeker
• 0
Great Question
to
Ann
★ 2.4k
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marco.barr
▴ 80
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Kash
▴ 110
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GenoMax
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Recent Replies
Comment: GTF file for Rhinolophus sinicus
by
GenoMax
141k
I was able to get the GTF file. I tried the fasta genome and it seemed to work but I did not complete the download. If you choose to ignore…
Comment: some error in building kraken2 database
by
Art1ess
• 0
I have 2 files output, no error logs... the .kreport file: 100.00 160136511 160136511 U 0 unclassified head .res…
Comment: TCGA2STAT Error: Firehose connection
by
LauferVA
4.2k
agree. from a data-centric (rather than software centric) standpoint, it shouldn't be hard to get the TCGA data you are looking for from o…
Comment: Redirection of Duplicate PMIDs
by
LauferVA
4.2k
yep. in this case id definitely start with the grant numbers themselves as others have indicated. i did not recommend this before due to un…
Comment: GTF file for Rhinolophus sinicus
by
atowns21
• 0
This download doesn't seem to work for me. There is a message on the website saying "Warning: contaminated. Status: RefSeq GCF_001888835.1 …
Answer: HaplotypeCaller - only SNPs
by
Pierre Lindenbaum
161k
Filter the vcf dowstream after haplotypecaller using bcftools or gatk variantfiltration
Answer: Gene set enrichment analysis differences between 2020 and 2024
by
geneontologyhelp
▴ 360
We have releases about monthly in order to keep our data accurate and reflect current understanding. In 4 years, there have been about 40 r…
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
by
GenoMax
141k
Let us know when you find out. Would be a useful thing to know what the data looks like.
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
by
atowns21
• 0
Yes, that is a very good idea. Thanks for the help!
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
by
GenoMax
141k
Only thing would be to try them out. See if you can detect them in the data you have. You could also simply look for unique representativ…
Comment: How to calculate identity percentage between proteins contained in a FASTA file?
by
GenoMax
141k
`clustal omega` can calculate distance matrix between two proteins (makes sense if your proteins are of similar size). You could try that: …
Comment: Should I use unpaired reads from trimmomatic
by
swbarnes2
14k
If the unpaired are _2, files, the _1 must exist somewhere. But the simple answer is probably going to be to just use all the _2 only. Yo…
Comment: Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
by
GenoMax
141k
> The needless granularity (fake precision) was obvious from the start You are assuming that all data generated is always of great quality…
Answer: Blasting two protein sequences vs two nucleotide sequences
by
Istvan Albert
100k
There are various versions of blast, that search in translated spaces, see blastx and tblastn https://blast.ncbi.nlm.nih.gov/Blast.cgi …
Answer: Should I use unpaired reads from trimmomatic
by
Istvan Albert
100k
If you have lots of data, both paired and unpaired, then the best strategy is probably to treat them separately and merge the counts at the…
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