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121,965 results • Page
211 of 2440
Sort: Rank
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Votes
Replies
4
votes
2
replies
1.2k
views
News:
Standalone NCBI ClusteredNR database now available for download
ClusteredNR
NCBI
standalone
BLAST
2.1 years ago by
PeterC_NCBI
▴ 520
3
votes
3
replies
1.2k
views
About scdbfinder
scRNA-seq
doublets
scdbfinder
2.1 years ago by
carolofharvest
▴ 50
0
votes
0
replies
654
views
News:
Virtual Variant Detection Workshop: September 11-14, 2023
tutorial
detection
genomics
workshop
variant
2.1 years ago by
mia.nahom
▴ 10
0
votes
0
replies
487
views
How to find commutation using plink?
commutation
plink
2.1 years ago by
_quantum_girl_
▴ 60
3
votes
4
replies
1.2k
views
Visualization of multiple sequence alignment quality
blastp
blast
msa
updated 2.1 years ago by
GenoMax
154k • written 2.1 years ago by
dec986
▴ 380
1
vote
2
replies
1.1k
views
how to filter the scRNAseq data, by percent genes expression, counts and others
scRNA-seq
updated 2.1 years ago by
jared.andrews07
★ 19k • written 2.1 years ago by
alwayshope
▴ 40
4
votes
2
replies
963
views
Normalisation on subset of genes
genechip
RNA-Seq
differential-expression
updated 2.1 years ago by
ATpoint
89k • written 2.1 years ago by
Mia
▴ 20
0
votes
3
replies
1.1k
views
Identification of transgene insertion site using Illumina DNA Sequencing
Transgene
2.1 years ago by
ccstaats
▴ 40
1
vote
1
reply
3.0k
views
SNPhylo Error Help: there is no SNP and Na/NaN arguement
snphylo
tree
VCF
phylogenetic
updated 2.1 years ago by
GenoMax
154k • written 9.1 years ago by
N Smith
▴ 10
0
votes
0
replies
453
views
Question about relative contribution calculation
relative-contribution
updated 2.1 years ago by
Ram
45k • written 2.1 years ago by
Andy
▴ 120
6
votes
8
replies
2.7k
views
"Simplifying" a very fragmented genome for visualisation?
reference-genome
visualisation
fasta
updated 2.1 years ago by
Ram
45k • written 4.1 years ago by
setschmann
▴ 10
2
votes
2
replies
864
views
Currently lost between contigs, scaffolds and chromosomes due to positionally sorted scRNAseq bam files
bam
contigs
scRNAseq
updated 2.1 years ago by
ATpoint
89k • written 2.1 years ago by
nyxtoviopouli
• 0
0
votes
0
replies
847
views
RnBeads Differential Methylation
rnbeads
RNA-seq
methylation
updated 2.1 years ago by
Ram
45k • written 2.1 years ago by
aroso491
• 0
0
votes
1
reply
833
views
Pairwise Sequence Alignments with Numbered Antibody Sequences
sequence
alignment
antibody
updated 2.1 years ago by
Jesse
▴ 880 • written 2.1 years ago by
jsweet6
• 0
5
votes
6
replies
1.7k
views
From where can I obtain vcf files of healthy exomes
exome
VCF
updated 2.1 years ago by
Ram
45k • written 2.1 years ago by
christinacanavati2014
• 0
0
votes
0
replies
634
views
News:
Introduction to Deep Learning for Biologists course
Python
Deep-Learning
Machine-Learning
updated 2.1 years ago by
Ram
45k • written 2.1 years ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
614
views
News:
Course - Reproducibility Data Analysis with R
R
renv
Version-Control
Reproducibility
updated 24 months ago by
Ram
45k • written 2.1 years ago by
Physalia-courses
★ 2.6k
0
votes
3
replies
1.1k
views
Genomic location of MUC16
VNTR
genome
updated 2.1 years ago by
GenoMax
154k • written 2.1 years ago by
zizigolu
★ 4.4k
0
votes
1
reply
705
views
prediction dead time within 24 hours with TPM-rna seq data
Python
CYCLOPS
R
Julia
updated 2.1 years ago by
Ram
45k • written 2.1 years ago by
sooni
▴ 20
0
votes
0
replies
485
views
affy expression array data
oligo
limma
RNA
2.1 years ago by
liuyibin2005
• 0
0
votes
2
replies
1.1k
views
Picking parameters for QC of long-read data?
long-read
nanopore
qc
qualiy-control
2.1 years ago by
Gio
▴ 10
0
votes
3
replies
1.2k
views
Calculating MAF from EAF from a GWAS summary statistics file in R
R
EAF
updated 2.1 years ago by
Ram
45k • written 2.1 years ago by
namraahmad173
• 0
4
votes
2
replies
4.2k
views
Tutorial:
Building mosdepth on macOS
nim
mosdepth
updated 2.1 years ago by
GenoMax
154k • written 5.4 years ago by
ATpoint
89k
2
votes
3
replies
1.3k
views
How to label only a few genes of interest in heatmap of bulk RNA-seq
RNA-seq
updated 2.1 years ago by
Ram
45k • written 2.1 years ago by
Chris
▴ 360
1
vote
2
replies
2.5k
views
junction_annotation.py: How many 'novel' splice junctions/splice events are resonably expected from human RNA,
RNA-Seq
junction_annotation.py
human
updated 2.1 years ago by
Nicolas Lichilin
▴ 20 • written 6.6 years ago by
RNAseqer
▴ 280
0
votes
2
replies
2.4k
views
Is there a way to subsample Hi-C at Hi-C matrix .cool file?
Hi-C
loops
updated 24 months ago by
kalavattam
▴ 380 • written 4.3 years ago by
sckinta
▴ 740
0
votes
0
replies
532
views
Converting the TCGA ID to the Cohort ID
tcga
depmap
tcgabiolinks
2.1 years ago by
tyasird
▴ 10
0
votes
0
replies
570
views
Implementing covariates in calculating differential methylation
rrbs
methylkit
epigenomics
2.1 years ago by
Srinka
▴ 20
1
vote
4
replies
1.5k
views
CAZy database has multiple family sequence...
metagenomics
cazy
annotation
updated 2.1 years ago by
JyiYeung
• 0 • written 2.8 years ago by
GYUDAE
• 0
299
votes
123
replies
47k
views
29 follow
Mean Length Of Fasta Sequences
code
fasta
sequence
codegolf
updated 6 months ago by
jena
▴ 330 • written 15.2 years ago by
Eric Normandeau
11k
1
vote
3
replies
1.3k
views
SNPs that have the same position and alleles, which rsnumber to pick?
dbSNP
SNV
SNP
updated 2.1 years ago by
LauferVA
4.8k • written 2.1 years ago by
TreasureChest
• 0
1
vote
2
replies
1.3k
views
ML tree inferred from multiple genes
phylogeny
iqtree
ML
phylotranscriptomics
orthologues
2.1 years ago by
Lada
▴ 40
1
vote
1
reply
1.0k
views
Adaptor sequence not present in raw paired-end reads
RNA-seq
updated 2.1 years ago by
ATpoint
89k • written 2.1 years ago by
Petesview
▴ 10
0
votes
0
replies
529
views
Associating between results obtained after running Trinity's run_DE_analysis.pl and genes
De-novo-transcriptome-assembly
Trinity
RNA-seq-analysis
2.1 years ago by
langziv
▴ 70
5
votes
8
replies
7.2k
views
Distinguish between forward strand, plus strand, sense strand
pysam
strand
star
sam
updated 2.1 years ago by
Buwei
• 0 • written 3.2 years ago by
tien
▴ 40
0
votes
0
replies
575
views
Find reference genome regions spanned by only mapping quality 0 reads in multiple WGS samples
mapping-quality
BAM
FASTA
2.1 years ago by
William
★ 5.4k
0
votes
7
replies
2.6k
views
build error with vg tools
ubuntu
vg
vgtools
updated 2.1 years ago by
z911741
• 0 • written 2.2 years ago by
rimo
▴ 10
0
votes
1
reply
839
views
How to extract gene lists following DEG analysis?
extract
gene
lists
updated 2.1 years ago by
seidel
11k • written 2.1 years ago by
hellokwmin
• 0
2
votes
5
replies
2.5k
views
Genome coverage of MAGs while submitting to NCBI
genome
MAGs
coverage
metagenomics
updated 22 months ago by
Mensur Dlakic
★ 30k • written 2.1 years ago by
Konstantin
▴ 40
1
vote
3
replies
1.2k
views
Can we use exon- counts to calculate coverage?
rna-seq
2.1 years ago by
unawaz
▴ 60
0
votes
6
replies
2.7k
views
Canu genome assembly error about low coverage
Pacbio
assembly
Canu
Genome
updated 19 months ago by
Philipp Bayer
8.9k • written 2.1 years ago by
Yao
▴ 30
1
vote
1
reply
1.1k
views
Which reference genome, DNA or cDNA and why?
or
DNA
cDNA
updated 2.1 years ago by
GenoMax
154k • written 2.1 years ago by
وفاء
• 0
0
votes
0
replies
614
views
Polishing unicycler hybrid assembly results
hybrid
unicycler
polish
2.1 years ago by
YAYA
• 0
1
vote
4
replies
1.7k
views
Problem while working with sequenza - Chromosomes out of order
sequenza
NGS
picard
samtools
bam
2.1 years ago by
Camilo Andres
▴ 40
0
votes
1
reply
901
views
WGCNA
WGCNA
Degree
igraph
updated 2.1 years ago by
LauferVA
4.8k • written 2.1 years ago by
mavy
▴ 10
0
votes
0
replies
544
views
should I normalized the relative abundance of TILs data?
infiltration
TISIDB
immune
2.1 years ago by
ali
• 0
3
votes
2
replies
1.7k
views
merge vcf files with overlapping positions and create consensus genotype
consensus
snp
merge
vcf
2.1 years ago by
hans.recknagel
▴ 20
0
votes
0
replies
612
views
Density plot for Quantile and Quartile normalization in geomx workflow
GeoMX
workflow
2.1 years ago by
Nai
▴ 50
0
votes
2
replies
1.1k
views
What is happening in the Zuker-Algorithm
R
folding
RNA
updated 2.1 years ago by
4galaxy77
2.9k • written 2.1 years ago by
Serij´s
• 0
0
votes
2
replies
1.5k
views
WES CNV analysis
CNV
WES
2.1 years ago by
Avinash
• 0
121,965 results • Page
211 of 2440
Recent Votes
Comment: Getting just fastqc.zip file?
alternate allele frequency and minor allele frequency
Calculating minor allele frequency for GnomAD VCF file
Hiring FT Remote Nextflow engineer to build ML workflows for cancer genomics
Answer: Gene expression equivalent of polygenic risk score ?
A: TRF output to .gff file
A: GATK ASEReadCounter: Downstream analysis for identifying allele specific express
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Popular Question
to
arshad1292
▴ 110
Popular Question
to
marongiu.luigi
▴ 760
Popular Question
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a615ebfb
▴ 60
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predeus
★ 2.1k
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raquel
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Jeremy Leipzig
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GouthamAtla
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Recent Replies
Comment: How to create a consensus of a contig with samtools or bbmap?
by
marongiu.luigi
▴ 760
sorry, I have mistaken samtools with spades... running `samtools view -h...` did the trick. Thank you.
Comment: Help with Ideathon
by
V K
• 0
Thank you for the response! Unfortunately this is completely independent and not part of a course. I was asking for some innovative ways to…
Answer: How to create a consensus of a contig with samtools or bbmap?
by
lieven.sterck
16k
You assembled a genome using samtools ???? that sounds very weird, if not impossible ... The header (SQ lines) is missing from your file b…
Answer: gnomad par region variants
by
benformatics
4.2k
The XX and XY counts are present on any given variants page.
Comment: Help with Ideathon
by
Mensur Dlakic
★ 30k
I don't see a single question here. Saying `I need your expert help in figuring out how I can make this analysis useful!` is too open-ended…
Comment: Differences between published differential gene expression results and own analy
by
ATpoint
89k
Please link the paper, lets see their methods. With human data it can well be that they included something like surrogate variables to damp…
Comment: Differences between published differential gene expression results and own analy
by
dsull
★ 7.7k
There are many ways to do normalization and one of the correct ways is simply to plug raw counts into deseq2 (the math that deseq2 uses to …
Comment: tximport error (medianLengthOverIsoform)
by
rfran010
★ 1.6k
Is it the version number in your data? e.g. ENST00000415118.1 vs ENST00000415118 could be causing the mismatch?
Comment: Differences between published differential gene expression results and own analy
by
vernonlim98
• 0
So is there any correct way for normalisation? I know limma recommends CPM via limma-voom and DESeq2 just takes in raw counts and does thei…
Comment: Gene expression equivalent of polygenic risk score ?
by
Picasa
▴ 690
Thanks a lot for your answer. I will check the paper.
Comment: Differences between published differential gene expression results and own analy
by
dsull
★ 7.7k
If those logFCs are different, then that's a normalization issue. The logFC is straight forward arithmetic (it's simply dividing mean of […
Comment: Differences between published differential gene expression results and own analy
by
vernonlim98
• 0
Thanks both for your input. It got me to look at the published methodologies more closely, and you guys were right. One paper that I was re…
Comment: Differences between published differential gene expression results and own analy
by
vernonlim98
• 0
Yes it does not match at all, and those genes that are common in both analysis results have very different logFC and p values
Comment: Errors with RSEM/bowtie2
by
Olivia
• 0
I am not sure what you mean by this, but I believe that is what I did. With Trinity, I matched all the paired reads together, so they shoul…
Answer: Gene expression equivalent of polygenic risk score ?
by
GouthamAtla
12k
I don't think something exists out of the box. With variants, we have a 'weight' for each variant on disease risk (obtained through large s…
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