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121,934 results • Page 118 of 2439
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3
votes
3
replies
1.3k
views
Sequence read length shorter than flow cell specification
illumina NGS sequencing
updated 17 months ago by 15k • written 17 months ago by ▴ 10
0
votes
0
replies
523
views
Designing single-stable RNA molecules
structure RNA
17 months ago by Edna • 0
1
vote
1
reply
750
views
Normalize scRNAseq data to housekeeping genes to compare several datasets
RNA-sequencing housekeeping Single-cell normalization
updated 17 months ago by 89k • written 17 months ago by • 0
0
votes
2
replies
905
views
BLAST using both nucleotides and taxonomic local databases
blast ncbi taxid taxonomy
updated 17 months ago by 154k • written 17 months ago by ▴ 210
0
votes
3
replies
2.7k
views
why renaming Idents in Seurat object doesn't work?
Seurat RenameIdents R
17 months ago by Assa Yeroslaviz ★ 1.9k
1
vote
2
replies
913
views
ScRNAseq-How to correctly choose cell type marker genes
cellAssign cell-markers
17 months ago by Francesco ▴ 20
1
vote
7
replies
1.8k
views
ScRNA data question
scRNA Vlnplot Samples
updated 17 months ago by ★ 3.1k • written 17 months ago by ▴ 10
0
votes
0
replies
467
views
News: Master Meta-analysis with R (May 13-16) - Online!
Meta-Analysis Statistics R
updated 17 months ago by 45k • written 17 months ago by ★ 2.6k
0
votes
0
replies
455
views
How to calculate correlation coefficient for chipseq?
chipseq bigwigsummary deeptools correlation
16 months ago by Emily ▴ 20
1
vote
0
replies
831
views
How to calculate reliable Ka/Ks or dN/dS ratio for genes of interest from VCF file
dnds kaks VCF
17 months ago by rohitsatyam102 ▴ 940
0
votes
0
replies
618
views
how to read graph_test output of monocle 3
monocle3
17 months ago by synat.keam ▴ 120
1
vote
0
replies
720
views
Job: CTO/founding engineer role at Voyant Bio
engineer
17 months ago by Assaf ▴ 10
0
votes
1
reply
1.2k
views
GAPIT p-value significance threshold
GAPIT p-value GWAS
updated 17 months ago by • 0 • written 22 months ago by • 0
3
votes
4
replies
1.1k
views
Why gatk VariantAnnotator required bam and coverage files
gatk VariantAnnotator
17 months ago by QX ▴ 80
2
votes
1
reply
615
views
Finding orthologs between genome error
OMA OMAbrowser
updated 17 months ago by ★ 1.1k • written 17 months ago by • 0
1
vote
0
replies
739
views
Why not use iBAQ for calculating differential abundance of proteins?
protein maxquant
17 months ago by Aspire ▴ 390
4
votes
5
replies
1.5k
views
Figures are disappeared from html report of SnpEff
HTML SnpEff
17 months ago by analyst ▴ 70
0
votes
4
replies
958
views
Highest variable features in single cell data
single-cell
16 months ago by carolofharvest ▴ 50
0
votes
1
reply
681
views
Network Alignment
plugin Cytoscape CytoMCS
updated 17 months ago by ▴ 310 • written 17 months ago by ▴ 60
3
votes
4
replies
3.4k
views
How could I generate a gi_taxid_nucl.dmp file similar to the one previously hosted by NCBI?
ncbi metagenomics centrifuge gi_taxid_nucl.dmp taxonomy
updated 17 months ago by • 0 • written 3.8 years ago by • 0
1
vote
3
replies
1.0k
views
PCA plot
DESeq2 PCAplot
updated 17 months ago by 4.8k • written 17 months ago by ▴ 10
7
votes
5
replies
2.2k
views
Tutorial: how to combine multiple RNAseq count files into a single dataframe in R and unix
Unix RNAseq R
updated 17 months ago by • 0 • written 17 months ago by ★ 4.7k
0
votes
4
replies
3.1k
views
Lositan freezing when generating selection table
LOSITAN
updated 17 months ago by • 0 • written 9.7 years ago by • 0
0
votes
0
replies
429
views
Can you give me an example of a small globular protein (PDB) that has disordered alpha-carbons?
protein pdb alpha-carbon
17 months ago by 4fzcgueyp5 • 0
2
votes
3
replies
1.1k
views
clustalo - align milions of short seq, memory issue
memory clustalo
updated 17 months ago by ★ 30k • written 17 months ago by ▴ 130
0
votes
2
replies
773
views
Annovar using R package
Annovar gnomAD R
17 months ago by DKA ▴ 40
0
votes
2
replies
720
views
Creating Synthetic Sequences for a ML Model
DNA ML
updated 17 months ago by ★ 30k • written 17 months ago by • 0
8
votes
8
replies
2.1k
views
PCA plot (Suggestions Needed)
DESeq2 PCAplot
updated 17 months ago by 15k • written 17 months ago by ▴ 10
1
vote
9
replies
3.2k
views
Adding CB tag to bam file
samtools bam
16 months ago by Maria • 0
0
votes
2
replies
1.5k
views
AGeNT LocatIt
AGeNT LocatIt WES UMI duplicates
updated 17 months ago by ★ 2.4k • written 4.2 years ago by ▴ 10
0
votes
5
replies
1.1k
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative ncbi asembly refseq
updated 17 months ago by 154k • written 17 months ago by ▴ 140
0
votes
0
replies
424
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA GDCprepare
updated 17 months ago by 45k • written 17 months ago by • 0
0
votes
0
replies
747
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome PGAP NCBI roary Prokka
17 months ago by pramach1 ▴ 40
0
votes
13
replies
5.7k
views
6 follow
Tax4Fun2 - error
tax4fun silva blast
updated 17 months ago by • 0 • written 3.6 years ago by ▴ 10
0
votes
1
reply
749
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate GEMMA GWAS
updated 17 months ago by • 0 • written 17 months ago by • 0
0
votes
0
replies
429
views
Sequence BLAST in plus/minus and plus/plus
blast CRISPR strand sequencing
17 months ago by Sergio A.S. ▴ 10
4
votes
7
replies
1.8k
views
To get p-values for the TPM
P-value TPM RSEM
updated 17 months ago by ★ 7.7k • written 17 months ago by • 0
0
votes
5
replies
1.4k
views
different FeatureCounts output for the same data
fpkm Counts Rsubread rna-seq
updated 17 months ago by 103k • written 17 months ago by ▴ 10
0
votes
0
replies
578
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq single-cell suppa alternative-splicing
updated 17 months ago by 45k • written 17 months ago by • 0
1
vote
2
replies
703
views
alignment result
RNA-seq samtools hisat2
17 months ago by ahmad.sajad4541 • 0
0
votes
0
replies
404
views
News: hands-on introduction to generalized linear models (GLMs) using R
Generalized-Linear-Models GLM R
updated 17 months ago by 45k • written 17 months ago by ★ 2.6k
0
votes
2
replies
1.1k
views
Wilcox test using data slot (log normalized count values) of scRNA-seq between two groups
scRNAseq
17 months ago by mropri ▴ 170
2
votes
2
replies
759
views
HaplotypeCaller - only SNPs
HaplotypeCaller GATK
updated 17 months ago by ▴ 70 • written 17 months ago by ▴ 10
0
votes
0
replies
601
views
AttributeError: module 'scvelo' has no attribute 'pp
loomfile scvelo scipy annData numpy
17 months ago by Kash ▴ 110
7
votes
2
replies
930
views
Gene set enrichment analysis differences between 2020 and 2024
Gene-ontology
updated 17 months ago by ▴ 470 • written 17 months ago by • 0
1
vote
1
reply
615
views
Blasting two protein sequences vs two nucleotide sequences
gene-hunting blast
updated 17 months ago by 103k • written 17 months ago by • 0
2
votes
4
replies
1.7k
views
Should I use unpaired reads from trimmomatic
RNA-seq QC Trimmomatic
updated 17 months ago by 15k • written 17 months ago by • 0
0
votes
1
reply
614
views
How to solve this RoseTTAFold colaboratory error?
modeling Google Colaboratory RoseTTAFold protein
updated 17 months ago by ★ 30k • written 17 months ago by • 0
2
votes
2
replies
820
views
How to calculate identity percentage between proteins contained in a FASTA file?
protein FASTA alignment
updated 17 months ago by 45k • written 17 months ago by ▴ 140
4
votes
1
reply
1.6k
views
Seurat merge and batch correction
Seurat
updated 17 months ago by 45k • written 17 months ago by ▴ 20
121,934 results • Page 118 of 2439
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What happened to biomart.org
Answer: allele frequency in VCF
Understanding terms, specifically relating to GT:PL in a VCF file
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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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