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79 results • Page
1 of 2
Sort: replies
Rank
Views
Votes
Replies
0
votes
11
replies
520
views
How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq libraries?
STARSolo
scRNA-seq
STAR
snRNA-seq
MGI
2 days ago by
atowns21
• 0
2
votes
9
replies
846
views
TCGA2STAT Error: Firehose connection
FIREHOSE
TCGA
updated 4 days ago by
LauferVA
4.2k • written 6 months ago by
Gnana
• 0
0
votes
9
replies
2.4k
views
6 follow
Cannot process all the reads in a fast5 file?
metagenome
nanopore
basecalling
fastq
updated 2 hours ago by
chujie
• 0 • written 8 months ago by
Gio
• 0
0
votes
8
replies
335
views
Error in cnetplot enrichplot package
R
updated 6 days ago by
Ram
43k • written 6 days ago by
Farhad
• 0
0
votes
7
replies
328
views
Low mapping rate with Salmon
RNA-seq
Salmon
Quantification
updated 2 days ago by
GenoMax
141k • written 6 days ago by
Patadu94
• 0
0
votes
6
replies
442
views
Use of Kraken output for functional analysis
metagenomics
kraken
shotgun
updated 4 days ago by
gv
• 0 • written 27 days ago by
Srinka
▴ 20
2
votes
5
replies
458
views
Marking duplicates using UMIs
Deduplication
UMI
updated 6 days ago by
i.sudbery
19k • written 7 days ago by
Lipika
• 0
0
votes
5
replies
324
views
different FeatureCounts output for the same data
fpkm
Counts
Rsubread
rna-seq
updated 1 day ago by
Istvan Albert
100k • written 4 days ago by
sehriban.buyukkilic
▴ 10
1
vote
5
replies
284
views
Downsampling fastq file
downsample
fastq
updated 6 days ago by
Ram
43k • written 6 days ago by
marco.barr
▴ 80
0
votes
5
replies
321
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap
alignment
minimap2
GRCh38
assembly
4 days ago by
njornet
▴ 20
0
votes
5
replies
330
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
updated 3 days ago by
GenoMax
141k • written 4 days ago by
Bertalan_Takacs
▴ 90
2
votes
4
replies
285
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
4 days ago by
samuelkalandarov2002
▴ 10
1
vote
3
replies
2.5k
views
Problem to remove subset of patients with plink
plink
PED
updated 6 days ago by
chrchang523
10k • written 6.1 years ago by
Ginevra
▴ 10
1
vote
3
replies
269
views
some error in building kraken2 database
metagenome
kraken2
4 days ago by
Art1ess
• 0
0
votes
3
replies
274
views
Highest variable features in single cell data
single-cell
updated 2 days ago by
bk11
★ 2.4k • written 3 days ago by
Kazo
• 0
1
vote
3
replies
308
views
PCA plot
DESeq2
PCAplot
updated 3 hours ago by
LauferVA
4.2k • written 3 days ago by
Aaliya
▴ 10
1
vote
3
replies
201
views
How to assign cell types after integration in scRNA
scRNA-seq
updated 4 hours ago by
ATpoint
82k • written 1 day ago by
Francesco
▴ 10
1
vote
3
replies
229
views
Filter BAM to keep only alignments at an interval, ignoring reads spliced over
samtools
bam
splicing
5 days ago by
WouterDeCoster
47k
0
votes
2
replies
242
views
Annovar using R package
Annovar
gnomAD
R
3 days ago by
DKA
▴ 40
1
vote
2
replies
240
views
permutation test in edgeR
rna-seq
edgeR
updated 6 days ago by
Gordon Smyth
★ 7.0k • written 20 days ago by
Netanel
• 0
0
votes
2
replies
251
views
How to calculate identity percentage between proteins contained in a FASTA file?
protein
FASTA
alignment
updated 4 days ago by
Ram
43k • written 5 days ago by
v.berriosfarias
▴ 140
1
vote
2
replies
221
views
alignment result
RNA-seq
samtools
hisat2
3 days ago by
ahmad.sajad4541
• 0
0
votes
1
reply
156
views
RNA-seq bacteria contamination
RNA-seq
updated 6 days ago by
GenoMax
141k • written 6 days ago by
sh
• 0
0
votes
1
reply
130
views
Displaced fragment length distribution in ATAC-seq
ATAC-seq
nucleosome
fragment
updated 6 days ago by
ATpoint
82k • written 6 days ago by
enanoide
• 0
0
votes
1
reply
138
views
tbtool
tbtool
updated 6 days ago by
Ram
43k • written 6 days ago by
Raman
• 0
0
votes
1
reply
147
views
Identification of Transgene insertion sites
Transgene
Whole-Genome-Sequencing
transgene-sites
updated 6 days ago by
Ram
43k • written 6 days ago by
Cameron.walker9900
• 0
0
votes
1
reply
164
views
Plot DNA methylation level of DMR on the basis of certain genes
rrbs
methylkit
updated 5 days ago by
GenoMax
141k • written 5 days ago by
Srinka
▴ 20
1
vote
1
reply
173
views
Failed kmer content
kmer
illumina
ngs
updated 5 days ago by
Ram
43k • written 5 days ago by
Kasturi
• 0
0
votes
1
reply
145
views
Subset Seurat object from Xenium spatial data
Seurat
Xenium
Spatial
updated 5 days ago by
bk11
★ 2.4k • written 5 days ago by
Susmita Mandal
▴ 110
0
votes
1
reply
161
views
Find subcluster under a cluster, find differential genes in one cluster between 2 samples??
clustering
subclustering
scRNAseq
updated 5 days ago by
bk11
★ 2.4k • written 5 days ago by
alphaflylizard
• 0
0
votes
1
reply
154
views
How to solve this RoseTTAFold colaboratory error?
modeling
Google
Colaboratory
RoseTTAFold
protein
updated 4 days ago by
Mensur Dlakic
★ 27k • written 5 days ago by
benguyarenbeyaz98
• 0
0
votes
1
reply
149
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate
GEMMA
GWAS
updated 4 days ago by
Sofia
• 0 • written 4 days ago by
mawigoj318
• 0
0
votes
1
reply
476
views
GAPIT p-value significance threshold
GAPIT
p-value
GWAS
updated 3 days ago by
ginellegrenier
• 0 • written 4 months ago by
Clayton
• 0
0
votes
1
reply
191
views
Normalize scRNAseq data to housekeeping genes to compare several datasets
RNA-sequencing
housekeeping
Single-cell
normalization
updated 3 days ago by
ATpoint
82k • written 3 days ago by
AaronJaime
• 0
0
votes
1
reply
86
views
Downloading full alignments from Pfam
pfam
updated 6 hours ago by
GenoMax
141k • written 10 hours ago by
bef1
• 0
0
votes
0
replies
99
views
Merging replicates from Encode project
CHIP-seq
encode
5 days ago by
Nurken
• 0
0
votes
0
replies
20
views
PDB related issue
rcsb
pdb
1 hour ago by
Nafi
• 0
0
votes
0
replies
80
views
Filtering most similarly expressed gene (contrary to differential expression gene) with NOISeq?
NOIseq
5 days ago by
alifafiq1
• 0
0
votes
0
replies
110
views
Pairwise alignment and Ka/Ks computation
Pairwise-Alignment
Genomics
Ka-Ks
updated 6 days ago by
Ram
43k • written 6 days ago by
maxime.policarpo
▴ 200
0
votes
0
replies
138
views
Sequence BLAST in plus/minus and plus/plus
blast
CRISPR
strand
sequencing
4 days ago by
salias
• 0
0
votes
0
replies
275
views
Choice of relatedness cutoff for GWAS of a large cohort (>100K samples)
relatedness
IBD
GWAS
updated 6 days ago by
Ram
43k • written 14 months ago by
Oak
▴ 10
0
votes
0
replies
294
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome
PGAP
NCBI
roary
Prokka
4 days ago by
pramach1
▴ 40
0
votes
0
replies
75
views
Correct way of reducing predictive model complexity
lasso
glmnet
predictvemodeling
regression
6 days ago by
sativus
▴ 20
0
votes
0
replies
136
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA
GDCprepare
updated 4 days ago by
Ram
43k • written 4 days ago by
glaciya2018
• 0
0
votes
0
replies
119
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq
single-cell
suppa
alternative-splicing
updated 4 days ago by
Ram
43k • written 4 days ago by
newuser2024
• 0
0
votes
0
replies
102
views
Is result interpretation of the modelHomotypic function of the DoubletFinder correct?
doublet
DoubletFinder
Seurat
modelHomotypic
updated 4 days ago by
Ram
43k • written 4 days ago by
Jeyong
• 0
0
votes
0
replies
199
views
Meta analysis of two GWAS summary statistics: one study is case-control and the other is quantitative
GWAS
Meta-analysis
updated 6 days ago by
Ram
43k • written 6 days ago by
Oak
▴ 10
0
votes
0
replies
144
views
Can you give me an example of a small globular protein (PDB) that has disordered alpha-carbons?
protein
pdb
alpha-carbon
3 days ago by
4fzcgueyp5
• 0
0
votes
0
replies
93
views
Analysis of the gene family of a genome.
Genome
gene-family
updated 6 days ago by
Ram
43k • written 6 days ago by
sansan_96
▴ 80
0
votes
0
replies
145
views
Why not use iBAQ for calculating differential abundance of proteins?
protein
maxquant
3 days ago by
Aspire
▴ 300
79 results • Page
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Answer: NGS forensics: how to know if data is fabricated
Answer: NGS forensics: how to know if data is fabricated
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Answer: NGS forensics: how to know if data is fabricated
Comment: NGS forensics: how to know if data is fabricated
Comment: NGS forensics: how to know if data is fabricated
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Recent Replies
Answer: NGS forensics: how to know if data is fabricated
by
Mensur Dlakic
★ 27k
I share the opinion by @philippbayer I have seen enough questionable things in life and in science to keep me permanently jaded, but there…
Comment: How many reads for WGS Sequencing?
by
Mensur Dlakic
★ 27k
I downloaded the data in two files from the link you provided. With this command: megahit -1 ERR072246_1.fastq.gz -2 ERR072246_2.fastq…
Comment: How many reads for WGS Sequencing?
by
Mensur Dlakic
★ 27k
If you have Linux the assembly should work on your system, but 8 GB is generally not enough for assembling larger genomes.
Comment: How many reads for WGS Sequencing?
by
Mensur Dlakic
★ 27k
I think you might be getting stuck on less relevant parts of my exercise. The most important point was that nothing is wrong with the data.…
Comment: What does it mean single base resolution in sequencing?
by
dsull
★ 5.9k
Great comprehensive explanation and overview of the technologies -- with regards to sequencing assays, the one thing I'd add is SNV identif…
Answer: What does it mean single base resolution in sequencing?
by
dsull
★ 5.9k
I think that term means slightly different things in different contexts. For example, it's useful to profile mRNA modifications (e.g. m6a) …
Comment: Cannot process all the reads in a fast5 file?
by
chujie
• 0
Hi, I met the same problem, have you found the solution?
Answer: What does it mean single base resolution in sequencing?
by
LauferVA
4.2k
Hi @fe3e6f65 , In a single sentence, the answer to your question can be summarized as, "*the resolution of a genomic technology refers to …
Comment: PCA plot
by
LauferVA
4.2k
Without more context, we cannot interpret this PCA plot. There are many possibilities. In addition, this question is basic enough that it w…
Comment: NGS forensics: how to know if data is fabricated
by
Jeremy Leipzig
22k
i have the name ready: out**liar**
Comment: What does it mean single base resolution in sequencing?
by
GenoMax
141k
Sequencing by hybridization (https://en.wikipedia.org/wiki/Sequencing_by_hybridization ) is likely not giving you single base resolution. B…
Comment: Fetch table from clinvar database according to a list of rsid
by
ashaneev07
▴ 20
Hii... i have updated the script in python..But, still getting no data found. Actually the data is there, i have print the parsed html file…
Comment: How to assign cell types after integration in scRNA
by
ATpoint
82k
https://bioconductor.org/books/release/OSCA.multisample/using-corrected-values.html
Comment: Downloading full alignments from Pfam
by
GenoMax
141k
Not as convenient but the entire set of full alignments can be downloaded here: https://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/Pf…
Comment: How many reads for WGS Sequencing?
by
GenoMax
141k
> What does clipped Fastq mean? Probably means that NCBI has already scanned and trimmed adapter sequencers. > both forward and revers…
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