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121,931 results • Page
106 of 2439
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4
votes
5
replies
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Search within posts based on tags using the Biostars API
api
meta
updated 16 months ago by
Ram
45k • written 16 months ago by
Bálint
▴ 10
0
votes
0
replies
411
views
Funcotator gnomAD incoherent number of output fields
gatk
gnomAD
Funcotator
updated 16 months ago by
Ram
45k • written 16 months ago by
jaime alvarez
▴ 30
0
votes
1
reply
652
views
Help with proteomics downstream analysis
mass-spectrometry
proteomics
updated 16 months ago by
Ram
45k • written 16 months ago by
Álvaro
• 0
1
vote
3
replies
1.2k
views
How to Convert CNV Data to CNA Format for Reproducing Results with the Padma Package?
multi-omics
CNV
R
updated 15 months ago by
Zhenyu Zhang
★ 1.3k • written 16 months ago by
Ngrin
• 0
1
vote
0
replies
311
views
Calculating F_IS, F_IT on ancient DNA
adna
16 months ago by
devenvyas
▴ 770
0
votes
0
replies
365
views
The number of region with the motif sequence is different between HOMER outputs
findMotifsGenome
HOMER
annotatePeaks
16 months ago by
Aki
▴ 20
3
votes
4
replies
2.3k
views
Cut&Run and heatmap
MACS2
bowtie2
updated 16 months ago by
gglim
▴ 220 • written 2.4 years ago by
qudrat.nii
▴ 40
3
votes
12
replies
8.1k
views
8 follow
txt file to bigwig
MEME
bigwig
updated 14 months ago by
GenoMax
154k • written 9.9 years ago by
tanni93
▴ 50
2
votes
2
replies
940
views
Help me with Heatmap
RNA-seq
R
DESeq2
updated 16 months ago by
zx8754
12k • written 16 months ago by
vmpsb
• 0
0
votes
2
replies
675
views
identify the coordinate for coding and non_coding region.
coding
non_coding
16 months ago by
G.S
▴ 60
64
votes
25
replies
64k
views
22 follow
Download All The Bacterial Genomes From Ncbi
ncbi
updated 16 months ago by
GenoMax
154k • written 12.7 years ago by
rehma.ar
▴ 290
2
votes
2
replies
3.0k
views
Salmon vs Kallisto vs RSEM
RSEM
quantification
kallisto
Salmon
16 months ago by
Mohamed Abderrahmane
▴ 20
1
vote
0
replies
468
views
virus genome annotation
annotation
gff3
consensus
NCBI
coding_regions
updated 16 months ago by
Ram
45k • written 16 months ago by
G.S
▴ 60
4
votes
7
replies
4.2k
views
Tool:
Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID
Ensembl
biomart
annotation
16 months ago by
Shred
★ 1.6k
0
votes
1
reply
656
views
Subset of Transcripts- How do I proceed with it?
Stringtie
updated 16 months ago by
Carlo Yague
9.0k • written 16 months ago by
Varsha
• 0
1
vote
2
replies
4.9k
views
How can run cd-hit-est with a clstr threshold less than 0.8?
cd-hit
cluster
updated 16 months ago by
Asaf
10k • written 7.6 years ago by
m.koohi.m
▴ 120
0
votes
2
replies
922
views
Tools for chromosomal aneuploidy detection
human-genetics
aneuploidy
NGS
updated 16 months ago by
Ram
45k • written 16 months ago by
adarsh
▴ 60
0
votes
0
replies
363
views
PyRMD
machine-learning
cheminformatics
Virtual-Screening
updated 16 months ago by
Ram
45k • written 16 months ago by
s
• 0
3
votes
5
replies
1.4k
views
Invalid CIGAR after using bam clipOverlap
validatesamfile
cigar
bam
clipoverlap
16 months ago by
MboiTui
▴ 20
0
votes
0
replies
399
views
Determining rs ids from SNP HGV base ID?
rsID
HGV
SNP
updated 16 months ago by
Ram
45k • written 16 months ago by
Katherine
• 0
0
votes
5
replies
1.4k
views
How to add Ensembl ids after Pseudobulk analysis by DESeq2
Seurat
Pseudobulk
single-cell
DESeq2
scRNA
16 months ago by
Sara
▴ 40
0
votes
1
reply
1.3k
views
Facing problem with single cell rna seq annotation using singleR
singleR
scRNA-seq
updated 15 months ago by
Ram
45k • written 16 months ago by
TNF_alpha
• 0
0
votes
0
replies
461
views
Imputed data doesn't match directly genotyped APOE genotype
APOE
directgenotyping
imputation
16 months ago by
kl
▴ 20
0
votes
0
replies
339
views
Tubemap multiseq
vg
16 months ago by
karciharun42
• 0
5
votes
3
replies
7.6k
views
Attempt to set 'rownames' on an object with no dimensions
R
microbiome
spieceasi
updated 16 months ago by
GenoMax
154k • written 4.9 years ago by
ks.sholohova
▴ 30
0
votes
0
replies
534
views
News:
Online course: Population Genomic Inference from Low-Coverage Whole-Genome Sequencing Data
Genotype-Likelihoods
Low-Coverage
Population-Genomics
ANGSD
updated 16 months ago by
Ram
45k • written 16 months ago by
Physalia-courses
★ 2.6k
0
votes
2
replies
755
views
How to decrease the motif score?
Motif-score
updated 16 months ago by
Ram
45k • written 16 months ago by
Hadia
• 0
0
votes
0
replies
400
views
immuCell Abundance infiltrate
ImmuCell
updated 16 months ago by
Ram
45k • written 16 months ago by
elbakri.fatimazahrae
• 0
1
vote
2
replies
899
views
Setting a threshold on gene expression for subsetting (scRNA-seq)
scRNA-seq
updated 16 months ago by
LauferVA
4.8k • written 16 months ago by
carolofharvest
▴ 50
0
votes
0
replies
539
views
MaxEntScan for rMATS results
MaxEntScan
rMATS
16 months ago by
adi.gershon1
▴ 10
0
votes
0
replies
891
views
ERROR with Maker annotation: The assumed RepeatMasker installation directory /opt/home/sony/miniconda3/envs/MAKER2/share/RepeatMasker does not ap…
RepeatMasker.
MAKER.
annotation.
16 months ago by
Sony
▴ 20
4
votes
2
replies
1.0k
views
Number of non-ATCG nucleotides replaced by Salmon
rna-seq
stringtie
salmon
updated 16 months ago by
Ram
45k • written 16 months ago by
Tonya S.
▴ 10
1
vote
4
replies
2.2k
views
Tool:
Introducing NovaDemux, a Sequence Demultiplexer that Increases Yield and Salvages Failed Runs
NovaDemux
NovaSeq
Illumina
Demultiplexing
Barcode
14 months ago by
Brian Bushnell
20k
5
votes
11
replies
6.0k
views
ComplexHeatmap - How to change fontsize of rowAnnotation
r
ComplexHeatmap
updated 16 months ago by
Ram
45k • written 16 months ago by
hannes.bongartz
• 0
0
votes
2
replies
944
views
perl Error - needLargeMem Bigwig
Bigwig
perl
mitosalt
16 months ago by
marco.barr
▴ 180
0
votes
0
replies
443
views
Duplicates of the same gene in Orthogroup sequence files
orthofinder
16 months ago by
niconps14
• 0
3
votes
5
replies
1.5k
views
How to scrape BioMart data from https://sorfs.ugent.be/ website
BioMart
updated 16 months ago by
Pierre Lindenbaum
166k • written 16 months ago by
QX
▴ 80
2
votes
6
replies
3.5k
views
Harmony integration group.by.var parameter
single-cell
harmony
updated 16 months ago by
jared.andrews07
★ 19k • written 16 months ago by
Picasa
▴ 690
2
votes
1
reply
1.3k
views
Why some SNP's allele frequencies in gnomAD are so different between v2 and v4?
AF
gnomAD
SNP
updated 16 months ago by
Jeremy Leipzig
23k • written 16 months ago by
liaotsungjen
▴ 10
0
votes
0
replies
464
views
Exon Annotation failed using homer annotatePeaks.pl
homer
alternative-splicing
annotatePeaks
updated 16 months ago by
Ram
45k • written 16 months ago by
Alessia
• 0
1
vote
4
replies
1.7k
views
How to calculate cell type frequency between two groups in single cell data
Seurat
single-cell
sc-RNA
cell-type
updated 16 months ago by
Francesco
▴ 20 • written 16 months ago by
Sara
▴ 40
0
votes
4
replies
1.0k
views
Mutation counts corrected by number of samples
mutations
WES
genomics
WGS
16 months ago by
garcesj
▴ 50
0
votes
1
reply
3.9k
views
bfctools merge [E::hts_open_format] Failed to open file
SNP
updated 16 months ago by
Ram
45k • written 4.9 years ago by
andemexoax
• 0
0
votes
1
reply
814
views
LDhat lookup table
LDhat
updated 16 months ago by
Ram
45k • written 2.2 years ago by
Matteo
▴ 10
0
votes
0
replies
459
views
Can you use a polygenic risk score for a trait (e.g., BMI) in association analyses when it doesn't associate with BMI in the sample it is used?
polygenic-risk-score
imputation
updated 16 months ago by
Ram
45k • written 16 months ago by
kl
▴ 20
0
votes
5
replies
1.1k
views
Bowtie 1.3.1 alignment error as array 21720,23124 produces sam bam files
Bowtie
16 months ago by
Deepthi
• 0
1
vote
4
replies
1.5k
views
Single cell analysis: Unable to subset cells in seurat object using desired nFeature_RNA cut off
single-cell
updated 15 months ago by
Ram
45k • written 16 months ago by
TNF_alpha
• 0
1
vote
2
replies
1.2k
views
Overlapping clusters for different biological conditions: Seurat, UMAP
Seurat
scRNA-seq
UMAP
16 months ago by
bio_info
▴ 20
3
votes
4
replies
5.3k
views
Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
single-cell
ambient-RNA
updated 16 months ago by
fracarb8
★ 1.7k • written 16 months ago by
txema.heredia
▴ 250
0
votes
0
replies
464
views
R code for KEGG pathways output
KEGGREST
dplyr
KEGG
R
16 months ago by
doramora
▴ 10
121,931 results • Page
106 of 2439
Recent Votes
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?
Looking to learn practical bioinformatics
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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!
Comment: Learning Biology/Bioinformatic Basics
by
Upesh
▴ 20
For anyone landing on this page, the updated link is: [https://www.langmead-lab.org/teaching.html][1] [1]: https://www.langmead-lab.org/…
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