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116,467 results • Page
1 of 2330
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1
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36
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Downloaded pdb's on rcsb.org
rcsb
pdb
updated 32 minutes ago by
GenoMax
141k • written 1 hour ago by
iamsmor
• 0
2
votes
2
replies
189
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
updated 1 hour ago by
shelkmike
★ 1.2k • written 9 hours ago by
kirillkirilenko
▴ 30
0
votes
0
replies
25
views
Variant Generation Using Longshot
long-reads
variant-calling
ONT
minion
longshot
updated 2 hours ago by
Ram
43k • written 2 hours ago by
samuelkalandarov2002
• 0
1
vote
1
reply
160
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
2 hours ago by
otieno43
▴ 30
795
votes
167
replies
141k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 12 weeks ago by
Biostar
2.6k • written 7.4 years ago by
Istvan Albert
100k
0
votes
1
reply
68
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
updated 2 hours ago by
Ram
43k • written 2 hours ago by
_quantum_girl_
▴ 10
0
votes
0
replies
30
views
traying to make a maf from an already annotated vcf
vcf2maf
VEP
maftools
updated 2 hours ago by
Ram
43k • written 2 hours ago by
Javier
• 0
1
vote
4
replies
500
views
What happened to Tombo Re-squiggle
Tombo
resquiggle
ONT
updated 2 hours ago by
Ram
43k • written 3 months ago by
turcoa1
• 0
0
votes
0
replies
32
views
Pruning with plink finds a majority of SNPs in very high LD
LD
SNP
plink
pruning
3 hours ago by
enferdeflame
• 0
0
votes
0
replies
37
views
Difference when using difference number of pathways score to compare between 3 groups
Limma
GSVA
50 minutes ago by
Chris
▴ 260
0
votes
0
replies
52
views
News:
Online course: Meta-analysis in R
Meta-Analysis
Statistics
R
updated 3 hours ago by
Ram
43k • written 5 hours ago by
carlopecoraro2
★ 2.5k
1
vote
9
replies
534
views
How can I retrieve wheat lysine non-acetylated sequences from the UniProt database?
UniProt
updated 4 hours ago by
Elisabeth Gasteiger
★ 2.4k • written 9 hours ago by
Jacky
• 0
0
votes
1
reply
133
views
10x VDJ (TCR/BCR) BAM to fastq
TCR
VDJ
BCR
10x
updated 5 hours ago by
GenoMax
141k • written 7 hours ago by
predeus
★ 1.9k
0
votes
1
reply
141
views
DEseq2
RNA-seq
DESeq2
updated 3 hours ago by
Ram
43k • written 8 hours ago by
rrehimi
• 0
0
votes
0
replies
56
views
News:
Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo
Individual-Based-Models
Agent-Based-Models
updated 3 hours ago by
Ram
43k • written 6 hours ago by
carlopecoraro2
★ 2.5k
4
votes
2
replies
195
views
Assume "yes" as the answer to any prompts with bioconda
docker
container
bioconda
updated 6 hours ago by
Juke34
8.5k • written 7 hours ago by
njornet
▴ 20
0
votes
0
replies
58
views
Tutorial:
DNA Methylation: Sequencing Techniques
WGBS
RRBS
7 hours ago by
Novogene
▴ 410
0
votes
1
reply
351
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
phylogenetic-tree
microbiome
updated 3 hours ago by
Ram
43k • written 19 months ago by
Muhammad
• 0
1
vote
2
replies
205
views
Korean human genome reference file
GWAS
reference
imputation
updated 5 hours ago by
GenoMax
141k • written 9 hours ago by
SeoGyun
• 0
1
vote
4
replies
301
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
updated 5 hours ago by
GenoMax
141k • written 9 hours ago by
n_navy
• 0
0
votes
2
replies
184
views
RNA seq differential expression analysis
RNA-seq
normalization
updated 3 hours ago by
Ram
43k • written 9 hours ago by
rrehimi
• 0
0
votes
0
replies
60
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau-score
tspex
updated 3 hours ago by
Ram
43k • written 9 hours ago by
bioinfo223
▴ 10
0
votes
0
replies
72
views
How to root an unrooted tree with a known root tree?
phylogenetics
rooting
R
10 hours ago by
P.
• 0
0
votes
0
replies
76
views
Issues with SnpEff Assuming Circular Chromosomes in Eukaryotic Genome Analysis
snpEff
12 hours ago by
ekirsch
• 0
0
votes
0
replies
108
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
16 hours ago by
renan.igor
• 0
1
vote
1
reply
169
views
Pediococcus acidilactici sequence analysis
BLAST
Gene-Ontology
updated 13 hours ago by
Ram
43k • written 18 hours ago by
anasjamshed
▴ 120
3
votes
1
reply
540
views
What is the normalization status of metabric data?
metabric
normalization
microarray
cbioportal
updated 17 hours ago by
etiennedanis
▴ 20 • written 19 months ago by
DareDevil
★ 4.3k
0
votes
0
replies
94
views
filter the most significant ligand and receptors in netVisual_bubble in cell chat
cellchat
18 hours ago by
synat.keam
▴ 100
0
votes
1
reply
182
views
assembly using CCS, CLR, CCS_CLR sequences together?
assembly
updated 20 hours ago by
GenoMax
141k • written 20 hours ago by
ycts
• 0
2
votes
3
replies
381
views
DEG analysis of RNA-seq data across multiple tissues and two conditions
RNA-seq
EdgeR
DEGs
DESeq2
updated 22 hours ago by
swbarnes2
14k • written 1 day ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
211
views
Inconsistency in SNP detection pipelines for multi-sample analysis
vcf
bam
bcf
snps
updated 23 hours ago by
LChart
3.9k • written 1 day ago by
George
▴ 10
0
votes
2
replies
262
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
9 hours ago by
Kai Xin
• 0
1
vote
1
reply
173
views
Retrieve a % coverage for each transcript
RNA-seq
updated 1 day ago by
Ram
43k • written 1 day ago by
jammydodger123456
▴ 40
0
votes
1
reply
292
views
Pruning Phylogenetic Trees and Bootstrap Values
phylogenetics
bootstrap
updated 1 day ago by
Klaus S
▴ 150 • written 6 days ago by
Zeng Hao
▴ 40
0
votes
2
replies
266
views
How can I solve this error?
metal
14 hours ago by
22211020193
• 0
0
votes
0
replies
107
views
Struggling to lift genome builds
PLINK
liftover
GWAS
updated 1 day ago by
GenoMax
141k • written 1 day ago by
srimmer
• 0
1
vote
2
replies
206
views
Can I readmap short reads to rDNA references?
rDNA
assembly
updated 1 day ago by
Ram
43k • written 1 day ago by
aniigodwinn
• 0
2
votes
3
replies
291
views
Sheep reference genome remapping coordinates
reference
remap
sheep
coordinates
genome
5 hours ago by
valentinatsar
• 0
1
vote
3
replies
216
views
Editing Human Reference Genome by adding a CDS
gff
agat
transcriptome
updated 1 day ago by
Michael
54k • written 1 day ago by
LDT
▴ 330
1
vote
10
replies
474
views
Questions about a bug when transferring cram file to bam file
sequence
samtools
bcftools
updated 2 hours ago by
GenoMax
141k • written 1 day ago by
me
• 0
2
votes
2
replies
269
views
differential gene expression analysis when not all samples have an untreated counterpart
differential-expression
edgeR
2 hours ago by
nhaus
▴ 300
0
votes
0
replies
194
views
Looking for an explanation as to what the Peak Score is from HOMER, not finding any answers on Biostars yet
Homer
ATAC-seq
1 day ago by
Ronin
• 0
4
votes
2
replies
1.7k
views
How to convert SAM/BAM file to GTF/GFF file?
GTF
SAM
BAM
GFF
minimap2
updated 1 day ago by
Dr.Animo
▴ 130 • written 11 months ago by
BioinfoBee
• 0
2
votes
6
replies
546
views
Removing duplicates
duplicates
ONT
minimap2
9 hours ago by
quentinperriere
• 0
0
votes
1
reply
149
views
Annotating a dataset with gnomAD v4 using Hail
Python
Sequencing
Hail
Exome
Annotation
updated 1 day ago by
DKA
▴ 40 • written 1 day ago by
james.melhorn
• 0
3
votes
4
replies
297
views
biomaRt error for different R version
biomaRt
R
updated 5 hours ago by
GenoMax
141k • written 1 day ago by
manaswwm
▴ 490
0
votes
1
reply
138
views
Freyja plot error
Freyja
updated 1 day ago by
Ram
43k • written 1 day ago by
Adyasha
• 0
1
vote
2
replies
154
views
Interpretation of combined P values - RNA microarray meta analysis
metaanalysis
R
microarray
DExMA
combinedP
1 day ago by
hagl
▴ 10
0
votes
0
replies
104
views
BIOM format can contain tabular data ?
BIOM
phyloseq
biomformat
R
1 day ago by
chemokine-1
▴ 10
0
votes
4
replies
381
views
How to reduce the variation of CIBERSORTx results?
CIBERSORTx
deconcolution
11 hours ago by
feather-W
• 0
116,467 results • Page
1 of 2330
Recent Votes
Exporting WGCNA step-to-step network construction objects into igraph object
Comment: Downloaded pdb's on rcsb.org
Answer: How to compare the quality of assemblies
How to compare the quality of assemblies
A: Best strategy for gene annotation for de novo genome assembly without RNA-seq da
Comment: Questions about a bug when transferring cram file to bam file
Answer: Problem with Mirdeep2 and Randfold output
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141k
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jkbonfield
★ 1.2k
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▴ 250
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Recent Replies
Comment: Downloaded pdb's on rcsb.org
by
GenoMax
141k
Download services for PDB are described on this page: https://www.rcsb.org/docs/programmatic-access/file-download-services It could be as …
Answer: How to compare the quality of assemblies
by
shelkmike
★ 1.2k
Since BUSCO results are almost identical but the assembly sizes differ significantly, I suppose that the difference between the assemblies …
Comment: differential gene expression analysis when not all samples have an untreated cou
by
nhaus
▴ 300
Thank you very much for your answer, that was very helpful! > Impossible to say. It depends on your data, particularly on how the donors …
Comment: QC exclusion of A/T or G/C alleles to avoid strand issues
by
bk11
★ 2.3k
This could be because they are probably merging two or more datasets. If you are merging two or more datasets, it will be very important th…
Answer: Problem with Mirdeep2 and Randfold output
by
otieno43
▴ 30
I sorted this out by first removing white space in the first line of the reference genome. Then indexed, the ran the mapper.pl script follo…
Comment: Questions about a bug when transferring cram file to bam file
by
GenoMax
141k
Just to be certain, you are saying that if OP runs `samtools view` without the explicit reference it will be automatically downloaded from …
Comment: Questions about a bug when transferring cram file to bam file
by
jkbonfield
★ 1.2k
That SQ M5 is chr1 in my copy of GRCh38 (Homo_sapiens.GRCh38_full_analysis_set_plus_decoy_hla.fa). I'm assuming your hg38.fa is not the sa…
Comment: What happened to Tombo Re-squiggle
by
Ram
43k
Please do not add answers unless you're answering the top level question. Instead, use `Add Comment` or `Add Reply` as appropriate. I've mo…
Comment: What happened to Tombo Re-squiggle
by
Joseph
• 0
Hi, Does anybody has the answer to this? I also want to resquiggle my data with Remora but do not quite get which is the appropriate com…
Comment: How To Identify The 16S Rrna Gene Sequence In A Genome
by
colindaven
6.3k
It's also worth mentioning `Barrnap` is in the bacterial annotation system **Prokka**. `Prokka` can be installed on Debian systems with `…
Comment: How can I retrieve wheat lysine non-acetylated sequences from the UniProt databa
by
Elisabeth Gasteiger
★ 2.4k
See also https://www.uniprot.org/help/negative_datasets
Comment: Sheep reference genome remapping coordinates
by
valentinatsar
• 0
Thank you for your response As I can understand this tool takes sequence input files right? I have genome-wide genotypes instead of sequen…
Comment: How can I retrieve wheat lysine non-acetylated sequences from the UniProt databa
by
me
▴ 750
Ok I made this into an answer. Could you please accept it as such.
Answer: How can I retrieve wheat lysine non-acetylated sequences from the UniProt databa
by
me
▴ 750
You can't. The data does not exist. UniProt only annotates where a lysine is know to be acetylated. There is no way that UniProt can know w…
Comment: How to compare the quality of assemblies
by
GenoMax
141k
Are there any short read datasets available in SRA? Can you try and see how many left over reads remain after you align to both of your ass…
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