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1,000 results • Page
5 of 20
Sort: Rank
Rank
Views
Votes
Replies
2
votes
4
replies
301
views
Addmetadata to seurat obj
seurat
18 days ago by
synat.keam
▴ 100
0
votes
0
replies
102
views
Methylation array analysis using dmpFinder
epic
methylation
normalization
dmp
mset
19 days ago by
Roy
▴ 10
0
votes
0
replies
192
views
Confused by the `--ld-window` flag in Vcftools. What does the number of SNPs between SNPs mean?
tabix
vcftools
19 days ago by
rijan_dhakal2055
• 0
0
votes
5
replies
404
views
Used featureCounts to generate a count matrix for sc RNA-seq and it has all 0s.
scRNA-seq
updated 18 days ago by
GenoMax
141k • written 19 days ago by
Shay
• 0
0
votes
0
replies
107
views
Databases with GoF (Gain of Function) annotations.
gof
lof
gain-of-function
19 days ago by
_quantum_girl_
▴ 10
0
votes
2
replies
252
views
Problem with downloading genome in SnpEff
SnpEff
18 days ago by
Javier
• 0
0
votes
0
replies
110
views
Comparison between Bracken outputs
Bracken
Kraken
Taxonomy
19 days ago by
SushiRoll
▴ 120
0
votes
4
replies
280
views
Adaptive sampling for whole chromosomes
T2T
Nanopore
AdaptiveSampling
aneuploidy
centromeres
18 days ago by
njornet
▴ 20
0
votes
0
replies
123
views
DESeq2 LRT divergent DEGs ?
interaction
LRT
deseq2
19 days ago by
klervi-lugue
• 0
0
votes
2
replies
223
views
BLASTP short sequences (<20aa) - interpreting results
blast
sequence
blastp
alignment
18 days ago by
neish
• 0
0
votes
3
replies
267
views
rRNA depletion of RIP-seq samples
rRNA
RIP-seq
updated 19 days ago by
noodle
▴ 530 • written 19 days ago by
CrisRisu
• 0
0
votes
1
reply
167
views
P-values for pairwise FST
FST
P-value
pairwise
updated 19 days ago by
dthorbur
★ 1.9k • written 19 days ago by
Emy
▴ 50
0
votes
4
replies
338
views
What is the samtools flag used in bamPEFragment?
deeptools
updated 17 days ago by
GenoMax
141k • written 19 days ago by
Soohyun
• 0
0
votes
0
replies
256
views
batch correction: cds from seurat
batch-correction
R
seurat
monocle3
cds
updated 19 days ago by
Ram
43k • written 19 days ago by
sooni
▴ 20
0
votes
0
replies
143
views
Seurat Package
seurat
19 days ago by
odi
▴ 10
0
votes
0
replies
123
views
RUVg correction
differential-expression
ruvseq
updated 19 days ago by
Ram
43k • written 19 days ago by
Shaimaa Gamal
▴ 10
0
votes
0
replies
128
views
How to annotate pairwise p value from limma (3 groups) in a combine multiple boxplot?
limma
boxplot
19 days ago by
Chris
▴ 260
0
votes
0
replies
135
views
Methylation workflow problem
rstudio
methylation
updated 20 days ago by
Ram
43k • written 20 days ago by
Roy
▴ 10
0
votes
0
replies
133
views
ChIP-seq gene blacklist for Rattus norvegicus
rat
blacklist
ChIP-seq
20 days ago by
Thomas
• 0
2
votes
2
replies
267
views
How to row normalize a matrixplot?
scRNA-seq
RNA-seq
single-cell
scanpy
13 days ago by
bioinfo
▴ 150
0
votes
5
replies
545
views
seg fault, core dumped with manta 1.6.0
manta
gdb
updated 20 days ago by
Ram
43k • written 23 days ago by
Greg
• 0
0
votes
1
reply
209
views
Pattern of GC content across reads from fastp
multiqc
ddRAD
updated 19 days ago by
GenoMax
141k • written 20 days ago by
jberg
• 0
2
votes
6
replies
412
views
create a gene count matrix csv file from seurat object
Seurat
sparseMatrix
20 days ago by
jkim
▴ 170
0
votes
0
replies
116
views
RNA velocity after SoupX in single cell data
soupX
scrna
transcriptomics
nuclei
updated 20 days ago by
GenoMax
141k • written 20 days ago by
shersky
• 0
0
votes
0
replies
114
views
What is more important for Structural Variant Calling? Recall or Precision?
structural-variants
merging
precision-recall
20 days ago by
Luke
• 0
1
vote
1
reply
466
views
PLINK multivariable GLM output: p-value without BETA and SE
linear-model
glm
plink
updated 20 days ago by
chrchang523
10k • written 20 days ago by
dsbusiness135
▴ 10
1
vote
2
replies
209
views
In need of help with my RNA velocity trajectory inference pipeline!
RNAvelocity
20 days ago by
phhelou5
• 0
0
votes
1
reply
266
views
How to do further funtional analysis of DEG KeggGet output list?
KEGGREST
DESEQ2
RNA-Seq
DEG
20 days ago by
joana.maclean
• 0
8
votes
10
replies
720
views
bash script
whole-genome-sequencing
updated 13 days ago by
Ram
43k • written 20 days ago by
bestone
▴ 30
0
votes
0
replies
122
views
Confusion with somatic variant calling: Advice on Ensembl-compatible resources?
GATK
Mutect2
ensembl
19 days ago by
DGTool
• 0
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
0
replies
277
views
Different rsID for the same chromsome, position, ref & alt allele depending on different data sources. Which one should I use?
UKB
rsID
UKB-PPP
ensembl-vep
dbsnp
18 days ago by
lsy9
▴ 20
0
votes
0
replies
135
views
How can I plot the PCA with the raw count mRNA seq data?
PCA
normalization
updated 20 days ago by
Ram
43k • written 20 days ago by
Yoomi
▴ 20
0
votes
0
replies
117
views
Blast2GO Fisher test
Fisher-test
Go-annotation
Blast2GO
updated 20 days ago by
Ram
43k • written 20 days ago by
BlackM
• 0
0
votes
1
reply
167
views
How do I run fastq-dump on multiple prefetched files at once?
sratoolkit
fastq-dump
updated 21 days ago by
Pierre Lindenbaum
161k • written 21 days ago by
biotrekker
▴ 100
0
votes
2
replies
270
views
Regions not clear in VCF
whole-exome
variant-calling
updated 20 days ago by
Ram
43k • written 21 days ago by
priya.bmg
▴ 60
0
votes
0
replies
140
views
NA values showing at duplicacy removal step
Microarray
RNA-Seq
21 days ago by
prithvi.mastermind
▴ 50
0
votes
0
replies
141
views
Comparing molecular subtypes identified by microarray or bulk RNASeq in ssRNASeq data
microarrray
single-cell
RNASeq
subtype
21 days ago by
akhattri
▴ 50
0
votes
1
reply
272
views
cibersort. problem
cibersort
gema122
updated 20 days ago by
Ram
43k • written 24 days ago by
gem1
• 0
1
vote
3
replies
395
views
multiple sequence alignment
BLAST
multiple-sequence-alignment
clustal-omega
MSA
updated 20 days ago by
Ram
43k • written 22 days ago by
catherinemaria2728
• 0
0
votes
1
reply
219
views
Best way to add alter fastq file by adding short repeats
fastq
updated 23 days ago by
GenoMax
141k • written 23 days ago by
pairedttest
▴ 10
0
votes
0
replies
158
views
PolyA in FastQC results from EM-Seq?
fastqc
wgbs
polya
methylation
emseq
23 days ago by
Watermelon
• 0
0
votes
1
reply
210
views
POD5 files
ONT
updated 23 days ago by
GenoMax
141k • written 23 days ago by
marco.barr
▴ 80
1
vote
4
replies
348
views
How to get human-mouse conservation score from UCSC
conservation
mouse
IGV
human
score
23 days ago by
diqixiaoyaoer
▴ 10
0
votes
0
replies
163
views
Problem with GATK FilterMutectCalls : using contamination table doesn' t change anything
vcf
contaminationtable
gatk
filtermutectcalls
genomics
23 days ago by
Samuel
▴ 20
0
votes
1
reply
229
views
How do I know whether it is not a failure of ChIPseq data
ChIPseq
updated 20 days ago by
dthorbur
★ 1.9k • written 23 days ago by
Herman Einstein
• 0
0
votes
0
replies
153
views
CIBERSORT deconvolution by using long read sequencing data
long-read-sequencing
CIBERSORT
updated 23 days ago by
Ram
43k • written 23 days ago by
IVORY
• 0
0
votes
0
replies
161
views
Saccharomyces cerevisiae orthologs in plants
database
orthologs
24 days ago by
dec986
▴ 370
0
votes
0
replies
142
views
Looking for Comprehensive Virtual Screening Examples with Results Validation
drug-discovery
virtual-screening
molecular-docking
updated 23 days ago by
Ram
43k • written 24 days ago by
Stefano
• 0
0
votes
1
reply
187
views
samflags to removes mapped concordantly >1 times
samtools
Bowtie2
Metagenome
updated 17 days ago by
jkbonfield
★ 1.2k • written 24 days ago by
pompam_5904
• 0
1,000 results • Page
5 of 20
Recent Votes
Comment: NGS forensics: how to know if data is fabricated
Comment: NGS forensics: how to know if data is fabricated
Answer: How to use limma to find differentially expressed genes in response to a continu
Batch effects : ComBat or removebatcheffects (limma package) ?
How to input margin to UpsetR figure
Comment: How to assign cell types after integration in scRNA
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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