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116,691 results • Page
1 of 2334
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Adjust pvalue in R with different approach give me all different outcome
statistics
pvalue
adjustment
R
just now by
Jonathan Yoou
▴ 60
0
votes
0
replies
6
views
Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x64-linux
blast
ram
storage
pssm
10 minutes ago by
Nafi
• 0
0
votes
0
replies
8
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
22 minutes ago by
jeffrey.maurer.informatics
• 0
0
votes
0
replies
15
views
p-value in CIBERSORT
CIBERSORT
p-value
updated 30 minutes ago by
Ram
43k • written 49 minutes ago by
michelafrancesconi9
▴ 20
0
votes
2
replies
83
views
ERROR When Using Ensembl Plants Biomart Wget API
biomart
plant
ensembl
updated 1 hour ago by
GenoMax
141k • written 7 hours ago by
Dora
▴ 10
0
votes
0
replies
28
views
News:
Goodbye, Slow Code? How BioNumpy can Redefine Python’s Role in Bioinformatics!
BioNumPy
Python
NumPy
updated 1 hour ago by
Ram
43k • written 1 hour ago by
Chakri
• 0
0
votes
0
replies
34
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
updated 30 minutes ago by
Ram
43k • written 2 hours ago by
Ahiad Chen Zion
• 0
0
votes
4
replies
124
views
Introduce SNPs on FASTA
simulation
snps
haplotypes
pharmacogenetics
updated 2 hours ago by
Michael
54k • written 4 hours ago by
Riccardo
▴ 10
0
votes
0
replies
39
views
barcode of TCR-sequencing
barcode
3 hours ago by
yueli7
▴ 250
0
votes
0
replies
47
views
News:
Online course: Meta-analysis in R - last 2 seats left
Meta-Analysis
Statistics
R
updated 3 hours ago by
Ram
43k • written 4 hours ago by
carlopecoraro2
★ 2.5k
795
votes
167
replies
142k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.7k • written 7.4 years ago by
Istvan Albert
100k
0
votes
0
replies
44
views
Somatic variant calling with Mutect2 using 2 matched-normals for one sample
cancer
mutect
variant-calling
GATK
somatic-variants
updated 2 hours ago by
Ram
43k • written 4 hours ago by
Alexandros
• 0
0
votes
1
reply
68
views
unable to get feature count results
featureCounts
updated 30 minutes ago by
Ram
43k • written 5 hours ago by
Ravita
• 0
0
votes
0
replies
44
views
Subsetting and merging back Seurat Object brings different results
Seurat
5 hours ago by
Bine
▴ 60
0
votes
1
reply
59
views
KEGG Pathways
r
RNA-seq
updated 30 minutes ago by
Ram
43k • written 6 hours ago by
Sudip
• 0
4
votes
6
replies
3.8k
views
Taking the difference of two VCFs (or removing singletons)
genome
sequencing
singleton
SNP
filter
updated 6 hours ago by
Andres
▴ 20 • written 9.6 years ago by
hermathena
▴ 40
0
votes
0
replies
46
views
Seurat object reductions (PCA, UMAP,..) after subsetting data
Seurat
6 hours ago by
Bine
▴ 60
0
votes
1
reply
195
views
News:
FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
7 hours ago by
David Langenberger
11k
0
votes
0
replies
47
views
Force PLINK2 to neglect chrX as the sex chromosome
PLINK2
7 hours ago by
8armed
• 0
0
votes
1
reply
98
views
Deseq2
Deseq2
updated 7 hours ago by
Jack Tierney
▴ 360 • written 8 hours ago by
Sudip
• 0
1
vote
1
reply
124
views
Polishing genome assembly
polishing
Nanopore
PacBio
updated 8 hours ago by
Michael
54k • written 18 hours ago by
Lissa Cruz Saavedra
• 0
5
votes
3
replies
164
views
6 follow
Integrate transcriptomic data and proteomics data.
OMICS
updated 7 hours ago by
Lluís R.
★ 1.2k • written 10 hours ago by
이민경[학생](대학원 융합의과학과)
• 0
2
votes
2
replies
103
views
MA plot of shrunken fold change
MA-plot
Deseq2
updated 8 hours ago by
ATpoint
82k • written 8 hours ago by
Sudip
• 0
1
vote
2
replies
99
views
Need help for downloading arabdopsis thaliana reference genome fasta file and gtf file
Arabidopsis-thaliana
gtf
reference-genome
updated 31 minutes ago by
Ram
43k • written 8 hours ago by
Ravita
• 0
0
votes
0
replies
42
views
Gene Specific coverage from WGS data
linux
WGS
Bioinformatics
SARS
CoV2
9 hours ago by
Adyasha
• 0
0
votes
0
replies
47
views
human gut metagenome taxonomy profile table and KO profile table from big cohort
metagenome
gut
human
12 hours ago by
fanglujing
▴ 60
0
votes
0
replies
62
views
Are some metagenomes too complex for MAGs?
metagenomics
metagenome
MAGs
assembly
14 hours ago by
Jacob
• 0
0
votes
3
replies
665
views
Why cd-hit-est not work when sequence identity threshold<0.95?
genome
cluster
sequence
updated 15 hours ago by
weidonglu
• 0 • written 21 months ago by
JZX
• 0
0
votes
4
replies
173
views
Perfom a Gene Ontology Analysis from GO terms txt file
RNA-Seq
GO
updated 10 hours ago by
Ram
43k • written 18 hours ago by
Hamtaro
▴ 50
0
votes
2
replies
145
views
Post-imputation plot
michigan-imputation-server
quality-control
2 hours ago by
kl
▴ 10
0
votes
1
reply
111
views
Differential Accessibility
DiffBind
updated 18 hours ago by
Ram
43k • written 19 hours ago by
Shloka
• 0
0
votes
3
replies
192
views
Landmark gene selection in L1000.
L1000
landmark-gene
cmap
updated 4 hours ago by
GenoMax
141k • written 20 hours ago by
kim
• 0
3
votes
2
replies
284
views
Extract protein sequence
fasta
alignment
blast
6 hours ago by
anna
▴ 20
3
votes
3
replies
234
views
Is it possible to bulk download files from GEO repository?
RNA-seq
Galaxy
Tanscriptomics
updated 23 hours ago by
noodle
▴ 580 • written 1 day ago by
WUSCHEL
▴ 750
1
vote
4
replies
227
views
Programmatically retrieving positions of protein active site residues
Uniprot
PDB
Proteins
updated 20 hours ago by
Wayne
★ 2.0k • written 1 day ago by
Mariana
▴ 20
0
votes
1
reply
97
views
metagenomic virome quality assessment
viromics
metagenomics
updated 23 hours ago by
Ram
43k • written 1 day ago by
Petchimuthu
• 0
3
votes
7
replies
228
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
22 hours ago by
salias
• 0
0
votes
0
replies
68
views
Using limma in methylation EM-seq?
EM-seq
methylation
1 day ago by
Lluís R.
★ 1.2k
4
votes
7
replies
510
views
Very low RNA splicing rate for pulmonary AT2 cells
RNA-velocity
scVelo
scRNA-seq
splicing
23 hours ago by
e.r.zakiev
▴ 200
0
votes
0
replies
77
views
Synteny analysis
bacterial
synteny
genome
updated 1 day ago by
GenoMax
141k • written 1 day ago by
Namil
• 0
0
votes
4
replies
176
views
Genbank File Format
gbkformat
7 hours ago by
alenew.am
• 0
0
votes
5
replies
331
views
How should I make kallisto indexes?
kallisto
updated 23 hours ago by
dsull
★ 5.9k • written 15 days ago by
bioinfo
▴ 150
0
votes
0
replies
156
views
Assist me in determining whether the analysis process using the limma package has been executed correctly
limma
ArrayExpress
DifferentialExpression
GEOquery
1 day ago by
SSSJec
• 0
0
votes
3
replies
170
views
Software to separate reads from different individuals
software
development
nanopore
updated 21 hours ago by
GenoMax
141k • written 1 day ago by
njornet
▴ 20
0
votes
0
replies
68
views
Seeking Guidance on Identifying Mutations in DARs from ATAC Data in Cancer Genomes
Genomics
Bioinformatics
ATACseq
CancerResearch
1 day ago by
David
• 0
4
votes
5
replies
237
views
High Malat-1 expression in single cell data
cell
analysis
single
updated 1 day ago by
dsull
★ 5.9k • written 1 day ago by
Kazo
▴ 10
0
votes
2
replies
137
views
How to update R on ubuntu
installation
update
R
apt-get
1 day ago by
Bosberg
▴ 50
4
votes
0
replies
106
views
Herald:
The Biostar Herald for Monday, April 29, 2024
herald
1 day ago by
Biostar
2.7k
0
votes
1
reply
114
views
Two references 1. genome 2. plasmid for bowtie2
WGS
BacterialGenomics
Alignment
updated 1 day ago by
GenoMax
141k • written 1 day ago by
Ruqaiya
• 0
0
votes
1
reply
262
views
Using Delly/Pindel/breakdancer for Identifying Transgene Insertion Sites in Mouse Genome
breakdancer
insertion
Pindel
variation
Delly
updated 1 day ago by
trausch
★ 1.9k • written 17 days ago by
zec018
• 0
116,691 results • Page
1 of 2334
Recent Votes
A: Can Biopython Properly Import Fasta Headers With Spaces In Them?
Programmatically retrieving positions of protein active site residues
Answer: Polishing genome assembly
Answer: Integrate transcriptomic data and proteomics data.
Answer: Integrate transcriptomic data and proteomics data.
Comment: Integrate transcriptomic data and proteomics data.
Comment: Integrate transcriptomic data and proteomics data.
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Jonathan Yoou
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Chris
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Lluís R.
★ 1.2k
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miles.anderson
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Recent Replies
Comment: RNAseq one control two conditions, shared and exclusive genes
by
matteo.levorato
• 0
thank you for your comment, but yes running DESeq2 is the starting point. dds <- DESeqDataSetFromMatrix(countData=RawCounts, …
Comment: Need help for downloading arabdopsis thaliana reference genome fasta file and gt
by
Ram
43k
Please stop pasting a sentence in the `tags` field. That field is for subject matter keywords. I've fixed your posts this time, please be m…
Comment: KEGG Pathways
by
Ram
43k
> is the below code correct Does it give you what you need?
Comment: from row count to tpm
by
Ram
43k
Hi https://www.biostars.org/u/119503/ Why did you delete this post?
Comment: ERROR When Using Ensembl Plants Biomart Wget API
by
GenoMax
141k
A couple of hours back using `plants.ensembl.org` was generating a 504 error but it seems to be working now. wget -O result.txt 'http…
Comment: why renaming Idents in Seurat object doesn't work?
by
Assa Yeroslaviz
★ 1.8k
Don't understand this comment. I don't have any columns with this name.
Answer: ERROR When Using Ensembl Plants Biomart Wget API
by
Ben_Ensembl
★ 2.4k
Hi Dora, For plant species such as *A. thalina*, you should use the http://plants.ensembl.org/biomart service, so the start of your wget…
Answer: Introduce SNPs on FASTA
by
christopher medway
▴ 450
You could take a look at the mutfa command in [seqtk][1] [1]: https://docs.csc.fi/apps/seqtk/#usage
Answer: Introduce SNPs on FASTA
by
Michael
54k
If you have a VCF file with all the ALT alleles that you need to insert and a reference genome in FASTA, you can use [bcftools consensus][1…
Comment: Introduce SNPs on FASTA
by
Riccardo
▴ 10
Thank you very much. Is there a script or program that does it automatically?
Comment: Post-imputation plot
by
kl
▴ 10
This does not warrant redoing the imputation, though? Do you have any advice of what to take care of, in this circumstance? Thanks!
Comment: unable to get feature count results
by
GenoMax
141k
Galaxy specific questions are best posted to their support site: https://help.galaxyproject.org/ That said, problems with counting are lik…
Comment: Landmark gene selection in L1000.
by
GenoMax
141k
Link for the data is included above.
Comment: Introduce SNPs on FASTA
by
GenoMax
141k
If you have specific changes you want to make then you can edit the fasta file accordingly.
Answer: Taking the difference of two VCFs (or removing singletons)
by
Andres
▴ 20
I know this is an old question but when searching for filtering out singletons(and doubletons too) i found this post in the first results. …
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