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121,934 results • Page
116 of 2439
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Votes
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0
votes
1
reply
625
views
GATK won't produce figures while analyzing covariates to generate 'recal_plots.pdf'
GATK
recalibration
updated 17 months ago by
GenoMax
154k • written 17 months ago by
mgranada3
▴ 60
0
votes
0
replies
378
views
Looking for the best way to interpret these data
RNA-seq
ontology
GO
updated 17 months ago by
Ram
45k • written 17 months ago by
Oscar
▴ 10
0
votes
7
replies
2.2k
views
Post-imputation plot
michigan-imputation-server
quality-control
updated 17 months ago by
LChart
5.1k • written 17 months ago by
kl
▴ 20
0
votes
1
reply
770
views
How to find overlap of clusters in two seurat porject
clustering
seurat
updated 17 months ago by
Adam
▴ 30 • written 17 months ago by
J
• 0
1
vote
3
replies
869
views
DESeq2 processing problems
deseq2
R
updated 17 months ago by
ATpoint
89k • written 17 months ago by
jagdish7921
• 0
0
votes
1
reply
1.3k
views
cnetplot category names are too long
clusterprofiler
RNA-Seq
enrichplot
cnetplot
updated 17 months ago by
Ram
45k • written 4.1 years ago by
carov
• 0
0
votes
1
reply
508
views
Mutect2 for mitochondria variant discovery
mutect2
mitochondria
updated 17 months ago by
Ram
45k • written 17 months ago by
ernestine.kubi
• 0
0
votes
0
replies
372
views
Tools to circularise the ion torrent bacterial genome assembly
iontorrent
bacteria
circularise
17 months ago by
VITALA
• 0
1
vote
2
replies
732
views
POSSUM not working due to incompatible pssm file
fasta
pse-pssm
pssm
POSSUM
17 months ago by
rianna.collins
• 0
0
votes
1
reply
534
views
Alternatives to metanalyisis. P integration. Horiztonal integration RNA-seq
rna-seq
updated 17 months ago by
i.sudbery
22k • written 17 months ago by
Edmond
• 0
0
votes
0
replies
431
views
What open-source tools can determine the coverage/completion of a pathway based on EC numbers?
metagenomics
metacyc
enzyme
pathway
genomics
17 months ago by
O.rka
▴ 750
0
votes
1
reply
1.2k
views
after selecting specific GO terms to plot, cneplot is not showing any color for genes, GO terms and only showing lines without nodes.
cneplot
updated 17 months ago by
Ram
45k • written 17 months ago by
Dr Huma Naz
• 0
2
votes
2
replies
1.4k
views
p-value in CIBERSORT
CIBERSORT
p-value
17 months ago by
michelafrancesconi9
▴ 20
0
votes
5
replies
1.2k
views
Telescope issue
Telescope
RNA-seq
updated 17 months ago by
GenoMax
154k • written 17 months ago by
eleven11
• 0
5
votes
6
replies
2.5k
views
Programmatically retrieving positions of protein active site residues
Uniprot
PDB
Proteins
updated 17 months ago by
me
▴ 760 • written 17 months ago by
Mariana
▴ 50
1
vote
1
reply
685
views
Adjust pvalue in R with different approach give me all different outcome
statistics
R
p-value
updated 17 months ago by
Ram
45k • written 17 months ago by
Jonathan Yoou
▴ 70
1
vote
2
replies
744
views
Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x64-linux
blast
pssm
17 months ago by
Nafi
• 0
1
vote
3
replies
859
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
updated 17 months ago by
GenoMax
154k • written 17 months ago by
jeffrey.maurer.informatics
• 0
1
vote
3
replies
1.2k
views
ERROR When Using Ensembl Plants Biomart Wget API
biomart
plant
ensembl
16 months ago by
Dora
▴ 10
0
votes
0
replies
606
views
News:
Goodbye, Slow Code? How BioNumpy can Redefine Python’s Role in Bioinformatics!
BioNumPy
Python
NumPy
updated 17 months ago by
Ram
45k • written 17 months ago by
Chakri
▴ 50
0
votes
2
replies
622
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
16 months ago by
Ahiad Chen Zion
• 0
1
vote
5
replies
1.3k
views
Introduce SNPs on FASTA
simulation
snps
haplotypes
pharmacogenetics
17 months ago by
Riccardo
▴ 10
0
votes
0
replies
435
views
News:
Online course: Meta-analysis in R - last 2 seats left
Meta-Analysis
Statistics
R
updated 17 months ago by
Ram
45k • written 17 months ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
467
views
Somatic variant calling with Mutect2 using 2 matched-normals for one sample
cancer
mutect
variant-calling
GATK
somatic-variants
updated 17 months ago by
Ram
45k • written 17 months ago by
Alexandros
• 0
0
votes
1
reply
548
views
unable to get feature count results
featureCounts
updated 17 months ago by
Ram
45k • written 17 months ago by
Ravita
• 0
0
votes
3
replies
753
views
KEGG Pathways
r
RNA-seq
updated 17 months ago by
Ram
45k • written 17 months ago by
Sudip
• 0
4
votes
6
replies
5.1k
views
Taking the difference of two VCFs (or removing singletons)
genome
sequencing
singleton
SNP
filter
updated 17 months ago by
Andres
▴ 20 • written 11.0 years ago by
hermathena
▴ 40
0
votes
0
replies
628
views
Seurat object reductions (PCA, UMAP,..) after subsetting data
Seurat
17 months ago by
Nona
▴ 90
0
votes
1
reply
516
views
Deseq2
Deseq2
updated 17 months ago by
Jack Tierney
▴ 450 • written 17 months ago by
Sudip
• 0
1
vote
1
reply
1.2k
views
Polishing genome assembly
polishing
Nanopore
PacBio
updated 17 months ago by
Michael
56k • written 17 months ago by
Lissa Cruz Saavedra
• 0
5
votes
3
replies
1.1k
views
6 follow
Integrate transcriptomic data and proteomics data.
OMICS
updated 17 months ago by
Lluís R.
★ 1.2k • written 17 months ago by
이민경[학생](대학원 융합의과학과)
• 0
2
votes
2
replies
608
views
MA plot of shrunken fold change
MA-plot
Deseq2
updated 17 months ago by
ATpoint
89k • written 17 months ago by
Sudip
• 0
1
vote
2
replies
698
views
Need help for downloading arabdopsis thaliana reference genome fasta file and gtf file
Arabidopsis-thaliana
gtf
reference-genome
updated 17 months ago by
Ram
45k • written 17 months ago by
Ravita
• 0
3
votes
3
replies
956
views
Gene Specific coverage from WGS data
WGS
SARS-CoV2
updated 16 months ago by
Ram
45k • written 17 months ago by
Adyasha
• 0
0
votes
0
replies
362
views
human gut metagenome taxonomy profile table and KO profile table from big cohort
metagenome
gut
human
17 months ago by
fanglujing
▴ 60
0
votes
0
replies
394
views
Are some metagenomes too complex for MAGs?
metagenomics
metagenome
MAGs
assembly
17 months ago by
Jacob
• 0
0
votes
3
replies
1.6k
views
Why cd-hit-est not work when sequence identity threshold<0.95?
genome
cluster
sequence
updated 17 months ago by
weidonglu
• 0 • written 3.2 years ago by
JZX
• 0
0
votes
4
replies
1.7k
views
Perfom a Gene Ontology Analysis from GO terms txt file
RNA-Seq
GO
updated 17 months ago by
Ram
45k • written 17 months ago by
Hamtaro
▴ 60
0
votes
1
reply
614
views
Differential Accessibility
DiffBind
updated 17 months ago by
Ram
45k • written 17 months ago by
shlo12
▴ 20
1
vote
3
replies
1.1k
views
Landmark gene selection in L1000.
L1000
landmark-gene
cmap
updated 17 months ago by
GenoMax
154k • written 17 months ago by
kim
• 0
3
votes
2
replies
1.1k
views
Extract protein sequence
fasta
alignment
blast
17 months ago by
anna
▴ 20
3
votes
3
replies
1.0k
views
Is it possible to bulk download files from GEO repository?
RNA-seq
Galaxy
Tanscriptomics
updated 17 months ago by
noodle
▴ 650 • written 17 months ago by
WUSCHEL
▴ 860
0
votes
1
reply
607
views
metagenomic virome quality assessment
viromics
metagenomics
updated 17 months ago by
Ram
45k • written 17 months ago by
Petchimuthu
• 0
3
votes
7
replies
1.4k
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
17 months ago by
Sergio A.S.
▴ 10
0
votes
0
replies
502
views
Using limma in methylation EM-seq?
EM-seq
methylation
17 months ago by
Lluís R.
★ 1.2k
4
votes
7
replies
1.9k
views
Very low RNA splicing rate for pulmonary AT2 cells
RNA-velocity
scVelo
scRNA-seq
splicing
17 months ago by
e.r.zakiev
▴ 260
0
votes
0
replies
390
views
Synteny analysis
bacterial
synteny
genome
updated 17 months ago by
GenoMax
154k • written 17 months ago by
Namil
• 0
0
votes
4
replies
879
views
Genbank File Format
gbkformat
17 months ago by
alenew.am
▴ 10
1
vote
5
replies
2.4k
views
How should I make kallisto indexes?
kallisto
updated 17 months ago by
dsull
★ 7.7k • written 17 months ago by
bioinfo
▴ 160
0
votes
0
replies
563
views
Assist me in determining whether the analysis process using the limma package has been executed correctly
limma
ArrayExpress
DifferentialExpression
GEOquery
17 months ago by
SSSJec
• 0
121,934 results • Page
116 of 2439
Recent Votes
What happened to biomart.org
Answer: allele frequency in VCF
Understanding terms, specifically relating to GT:PL in a VCF file
Comment: Looking to learn practical bioinformatics
Answer: WGCNA package in R: dendogram plot error
Answer: Does this adapter content from fastqc to warrant trimming prior to alignment?
Answer: Does this adapter content from fastqc to warrant trimming prior to alignment?
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Recent Replies
Answer: Linear regression vs DESeq2 models for DEG analysis
by
swbarnes2
15k
DE genes in bulk RNASeq is what DESeq2 was made for, so why wouldn't you use it? RPKM is not an appropriate normalization method here. M…
Comment: What happened to biomart.org
by
Jeremy Leipzig
23k
same with geuvadis.org
Comment: real time PCR data analysis
by
Gordon Smyth
★ 8.3k
Are you doing qPCR for one gene or for several genes?
Comment: protein interaction prediction
by
Fatemeh
▴ 50
Thanks very much for your help. I need to try it.
Comment: real time PCR data analysis
by
Fatemeh
▴ 50
Thanks a lot for the link. The problem is that with this repeated measures, if you put the data from different donors in different rows, fo…
Answer: What happened to biomart.org
by
GenoMax
154k
Looks like EBI let the domain registration expire. The domain was picked up by someone else and turned into the site OP mentions. There use…
Comment: Hifiasm is getting killed while trying to assemble a genome
by
GenoMax
154k
> I want to reconstruct the assembly using the pacbio reads only. Is there a paper associated with this data? If the original publication/…
Comment: real time PCR data analysis
by
ATpoint
89k
I think the keyword to go after here is repeated measures https://www.graphpad.com/guides/prism/latest/statistics/repeated_measures.htm
Answer: What happened to biomart.org
by
ATpoint
89k
Maybe I am missing sth because I've never used the website but only the API and R interface, but I think the website has always been https:…
Comment: protein interaction prediction
by
Fatemeh
▴ 50
It is most probably binding to a protein. Its function is somehow known though, which is good . Thanks very much for the link. I will have …
Comment: Looking to learn practical bioinformatics
by
Upesh
▴ 20
ATpoint, you are absolutely bang on. In fact, my intention is not to switch careers but to connect with this field and build tools/systems …
Comment: Hifiasm is getting killed while trying to assemble a genome
by
pranavdatar01
• 0
I am trying to reproduce the assembly from the raw pacbio reads. I want to reconstruct the assembly using the pacbio reads only.
Comment: Does this adapter content from fastqc to warrant trimming prior to alignment?
by
ATpoint
89k
I would trim it. Two percent is not much but with WGS, say you have 400mio reads per sample or so, it's still millions of reads that theore…
Comment: Looking to learn practical bioinformatics
by
ATpoint
89k
> How do I connect the dots to a grand vision of drug discovery, DNA analysis, disease etc. Despite that computational-driven data analys…
Comment: Looking to learn practical bioinformatics
by
Upesh
▴ 20
Thank you, genomax, for the recommendations! Very helpful!
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