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1,000 results • Page
3 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
2
replies
359
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
4 days ago by
Ashok
• 0
0
votes
2
replies
399
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
4 days ago by
Ashok
• 0
5
votes
2
replies
456
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
updated 4 days ago by
shelkmike
★ 1.2k • written 5 days ago by
kirillkirilenko
▴ 40
0
votes
0
replies
205
views
Variant Generation Using Longshot
long-reads
variant-calling
ONT
minion
longshot
updated 4 days ago by
Ram
43k • written 4 days ago by
samuelkalandarov2002
▴ 10
1
vote
1
reply
359
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
4 days ago by
otieno43
▴ 30
0
votes
2
replies
410
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
3 days ago by
_quantum_girl_
▴ 10
0
votes
0
replies
195
views
traying to make a maf from an already annotated vcf
vcf
vcf2maf
maf
maftools
VEP
21 hours ago by
Javier
• 0
1
vote
4
replies
672
views
What happened to Tombo Re-squiggle
Tombo
resquiggle
ONT
updated 4 days ago by
Ram
43k • written 3 months ago by
turcoa1
• 0
0
votes
0
replies
170
views
Pruning with plink finds a majority of SNPs in very high LD
LD
SNP
plink
pruning
4 days ago by
enferdeflame
• 0
1
vote
1
reply
401
views
Difference when using difference number of pathways score to compare between 3 groups
GSVA
Limma
updated 2 days ago by
Gordon Smyth
★ 7.0k • written 4 days ago by
Chris
▴ 260
0
votes
0
replies
182
views
News:
Online course: Meta-analysis in R
Meta-Analysis
Statistics
R
updated 4 days ago by
Ram
43k • written 4 days ago by
carlopecoraro2
★ 2.5k
3
votes
9
replies
766
views
How can I retrieve wheat lysine non-acetylated sequences from the UniProt database?
UniProt
updated 4 days ago by
Elisabeth Gasteiger
★ 2.4k • written 5 days ago by
Jacky
• 0
0
votes
1
reply
260
views
10x VDJ (TCR/BCR) BAM to fastq
TCR
VDJ
BCR
10x
updated 4 days ago by
GenoMax
141k • written 5 days ago by
predeus
★ 1.9k
0
votes
1
reply
259
views
DEseq2
RNA-seq
DESeq2
updated 4 days ago by
Ram
43k • written 5 days ago by
rrehimi
• 0
0
votes
0
replies
167
views
News:
Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo
Individual-Based-Models
Agent-Based-Models
updated 4 days ago by
Ram
43k • written 5 days ago by
carlopecoraro2
★ 2.5k
4
votes
2
replies
306
views
Assume "yes" as the answer to any prompts with bioconda
docker
container
bioconda
updated 5 days ago by
Juke34
8.5k • written 5 days ago by
njornet
▴ 20
1
vote
0
replies
164
views
Tutorial:
DNA Methylation: Sequencing Techniques
WGBS
RRBS
5 days ago by
Novogene
▴ 420
0
votes
1
reply
396
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
phylogenetic-tree
microbiome
updated 4 days ago by
Ram
43k • written 19 months ago by
Muhammad
• 0
3
votes
3
replies
489
views
Korean human genome reference file
GWAS
reference
imputation
4 days ago by
SeoGyun
• 0
0
votes
0
replies
154
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau-score
tspex
updated 4 days ago by
Ram
43k • written 5 days ago by
bioinfo223
▴ 10
0
votes
0
replies
168
views
How to root an unrooted tree with a known root tree?
phylogenetics
rooting
R
5 days ago by
P.
• 0
0
votes
0
replies
162
views
Issues with SnpEff Assuming Circular Chromosomes in Eukaryotic Genome Analysis
snpEff
5 days ago by
ekirsch
• 0
1
vote
1
reply
365
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
3 days ago by
renan.igor
• 0
2
votes
1
reply
247
views
Pediococcus acidilactici sequence analysis
BLAST
Gene-Ontology
updated 5 days ago by
Ram
43k • written 5 days ago by
anasjamshed
▴ 120
3
votes
1
reply
593
views
What is the normalization status of metabric data?
metabric
normalization
microarray
cbioportal
updated 5 days ago by
etiennedanis
▴ 20 • written 19 months ago by
DareDevil
★ 4.3k
0
votes
0
replies
165
views
filter the most significant ligand and receptors in netVisual_bubble in cell chat
cellchat
5 days ago by
synat.keam
▴ 100
0
votes
1
reply
259
views
assembly using CCS, CLR, CCS_CLR sequences together?
assembly
updated 5 days ago by
GenoMax
141k • written 5 days ago by
ycts
• 0
5
votes
4
replies
609
views
DEG analysis of RNA-seq data across multiple tissues and two conditions
RNA-seq
EdgeR
DEGs
DESeq2
4 days ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
265
views
Inconsistency in SNP detection pipelines for multi-sample analysis
vcf
bam
bcf
snps
updated 5 days ago by
LChart
3.9k • written 5 days ago by
George
▴ 10
0
votes
4
replies
565
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
4 days ago by
Kai Xin
• 0
1
vote
1
reply
217
views
Retrieve a % coverage for each transcript
RNA-seq
updated 5 days ago by
Ram
43k • written 5 days ago by
jammydodger123456
▴ 40
0
votes
1
reply
332
views
Pruning Phylogenetic Trees and Bootstrap Values
phylogenetics
bootstrap
updated 5 days ago by
Klaus S
▴ 150 • written 11 days ago by
Zeng Hao
▴ 40
0
votes
2
replies
360
views
How can I solve this error?
metal
5 days ago by
22211020193
• 0
0
votes
0
replies
160
views
Struggling to lift genome builds
PLINK
liftover
GWAS
updated 5 days ago by
GenoMax
141k • written 5 days ago by
srimmer
• 0
1
vote
2
replies
263
views
Can I readmap short reads to rDNA references?
rDNA
assembly
updated 5 days ago by
Ram
43k • written 5 days ago by
aniigodwinn
• 0
2
votes
3
replies
398
views
Sheep reference genome remapping coordinates
reference
remap
sheep
coordinates
genome
4 days ago by
valentinatsar
• 0
2
votes
3
replies
289
views
Editing Human Reference Genome by adding a CDS
gff
agat
transcriptome
updated 5 days ago by
Michael
54k • written 5 days ago by
LDT
▴ 340
2
votes
10
replies
710
views
Questions about a bug when transferring cram file to bam file
sequence
samtools
bcftools
updated 4 days ago by
GenoMax
141k • written 5 days ago by
me
• 0
2
votes
2
replies
366
views
differential gene expression analysis when not all samples have an untreated counterpart
differential-expression
edgeR
4 days ago by
nhaus
▴ 300
0
votes
0
replies
348
views
Looking for an explanation as to what the Peak Score is from HOMER, not finding any answers on Biostars yet
Homer
ATAC-seq
5 days 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 6 days ago by
Dr.Animo
▴ 130 • written 12 months ago by
BioinfoBee
• 0
2
votes
7
replies
793
views
Removing duplicates
duplicates
ONT
minimap2
updated 4 days ago by
joe
▴ 510 • written 6 days ago by
quentinperriere
• 0
0
votes
1
reply
191
views
Annotating a dataset with gnomAD v4 using Hail
Python
Sequencing
Hail
Exome
Annotation
updated 5 days ago by
DKA
▴ 40 • written 6 days ago by
james.melhorn
• 0
3
votes
4
replies
408
views
biomaRt error for different R version
biomaRt
R
updated 4 days ago by
GenoMax
141k • written 6 days ago by
manaswwm
▴ 490
0
votes
1
reply
177
views
Freyja plot error
Freyja
updated 5 days ago by
Ram
43k • written 6 days ago by
Adyasha
• 0
1
vote
2
replies
191
views
Interpretation of combined P values - RNA microarray meta analysis
metaanalysis
R
microarray
DExMA
combinedP
6 days ago by
hagl
▴ 10
0
votes
0
replies
152
views
BIOM format can contain tabular data ?
BIOM
phyloseq
biomformat
R
6 days ago by
chemokine-1
▴ 10
0
votes
4
replies
486
views
How to reduce the variation of CIBERSORTx results?
CIBERSORTx
deconcolution
5 days ago by
feather-W
• 0
0
votes
0
replies
218
views
Job:
Consultant to update a Snakemake workflow with the new Kubernetes executor plugin for Snakemake 8
Kubernetes
DevOps
executor
AWS
Snakemake
updated 6 days ago by
Michael
54k • written 6 days ago by
jonrkarr
▴ 100
0
votes
2
replies
209
views
Bedmethyl file format
bedmethyl
methylation
updated 5 days ago by
GenoMax
141k • written 6 days ago by
njornet
▴ 20
1,000 results • Page
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Comment: Correlation for ATAC-Seq and Chip-Seq
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Comment: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
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54k
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Recent Replies
Comment: Help for coding: Trinity for differential gene expression studies
by
rhossen
• 0
It should be great if I have any assistance in my build up command using trinity package...
Comment: Filter BAM to keep only alignments at an interval, ignoring reads spliced over
by
WouterDeCoster
47k
I want reads in a specific short interval, but if I do that with samtools view I also get reads that are spliced over that interval.
Answer: Help for coding: Trinity for differential gene expression studies
by
mchour
• 0
Hello, I would recommend following RSEM wiki for more information about the options, or even run RSEM directly, not with the script provi…
Answer: WGCNA preservation analysis
by
Michael
54k
This seems like a model case for why we need better sustainable bioinformatics data and services. I don't know the exact background behind …
Answer: some error in building kraken2 database
by
Art1ess
• 0
this is names.dmp:![names.dmp][1] and nodes.dmp![nodes.dmp][2] [1]: /media/images/33cc9a8b-4818-48b4-913d-1c2b2185 [2]: /media/i…
Comment: Filter BAM to keep only alignments at an interval, ignoring reads spliced over
by
Pierre Lindenbaum
161k
see also : https://www.biostars.org/p/9537698/ ; https://www.biostars.org/p/9464312/ ; https://www.biostars.org/p/417123/
Comment: Filter BAM to keep only alignments at an interval, ignoring reads spliced over
by
Pierre Lindenbaum
161k
what's the gray section ? it's the read you want ? do you only want the reads that end at the splice event (single point location) ?
Comment: interpretartion of a vcf file
by
Pierre Lindenbaum
161k
yes if there is more than one sample genotyped.
Comment: interpretartion of a vcf file
by
samuelkalandarov2002
▴ 10
Is it typical to observe such a profile in the context of diploid organism ?
Answer: Plots for DNA methylation data
by
Basti
★ 2.0k
Yes you can use ggplot2 to create your own plots from a table of results from a differential methylation analysis. You just need to adapt a…
Comment: Heatmap and rna-seq
by
Basti
★ 2.0k
This forum is not dedicated to this type of request, there are many online tutorials for creating heatmaps accessible with simple internet …
Answer: python file for coding potential calculator
by
atharvakarkare14
▴ 10
Download the CPC2 tool supported by python 3 from here [https://github.com/gao-lab/CPC2_standalone/releases/tag/v1.0.1][1]. Then follow …
Comment: Redirection of Duplicate PMIDs
by
LauferVA
4.2k
let me know the scope and scale of the request (e.g. I need to do this for every record in Pubmed) and can help
Comment: Redirection of Duplicate PMIDs
by
LauferVA
4.2k
how is this query itself originating?
Comment: Redirection of Duplicate PMIDs
by
dominickd
• 0
I was able to come up with a workaround using the requests library: import requests pmid = 30134295 url = 'https://pubmed.ncbi…
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