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122,015 results • Page 301 of 2441
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1
vote
1
reply
856
views
Replace header of fasta file according to another file
fasta
updated 2.7 years ago by 45k • written 2.7 years ago by ▴ 20
0
votes
0
replies
558
views
XCMS normalization
XCMS Metabolomics
updated 2.7 years ago by 45k • written 2.7 years ago by • 0
1
vote
4
replies
1.8k
views
extract pattern using grep/sed
grep linux sed
updated 2.7 years ago by 45k • written 2.7 years ago by ▴ 20
3
votes
2
replies
966
views
carp reads in my bacterial small RNome
rna-seq
updated 2.7 years ago by 8.0k • written 2.7 years ago by ▴ 120
2
votes
1
reply
948
views
Warning: Mate records missing HTSEQ
HTSEQ-COUNT
updated 2.7 years ago by 89k • written 2.7 years ago by ▴ 190
2
votes
5
replies
1.7k
views
Gene listed as "uncharacterized" even if I found it through another search term
blast
updated 2.7 years ago by ★ 30k • written 2.7 years ago by ▴ 10
1
vote
8
replies
6.2k
views
R Columns to Seurat Object
seurat scrna-seq
updated 2.7 years ago by • 0 • written 2.7 years ago by ▴ 30
1
vote
2
replies
1.1k
views
Multiple sequence alignment of mtDNA HV1-3 in R
R
2.7 years ago by irieljoerin ▴ 40
0
votes
0
replies
435
views
Can somebody suggest website(s) where I can find longevity of organisms?
aging genome telomere
updated 2.7 years ago by 45k • written 2.7 years ago by • 0
0
votes
0
replies
391
views
eXpress severe error; unable to know which gene it is
eXpress bowtie2
2.7 years ago by brandon123kee • 0
0
votes
0
replies
518
views
Calculating odds ratio for single variable
oddsratio variant-annotation SNP
updated 2.7 years ago by 45k • written 2.7 years ago by ▴ 20
1
vote
1
reply
813
views
Limma contrasts for DEGs
Limma RNA RNAseq DEG
updated 2.7 years ago by ▴ 370 • written 2.7 years ago by ▴ 10
3
votes
2
replies
1.1k
views
Cause of short sequences in Amplicon Sequencing?
Illumina ASV Amplicon DADA2
2.7 years ago by Saran ▴ 50
0
votes
1
reply
1.1k
views
Calculating Log of the odds (LOD)
QTLs LOD
updated 2.7 years ago by 89k • written 2.7 years ago by ▴ 10
0
votes
0
replies
520
views
Problem understanding the outputs of VarSim
benchmarking calling varsim synthetic
updated 2.7 years ago by 103k • written 2.7 years ago by • 0
3
votes
1
reply
820
views
Is there a way to make the NCBI entrez or datasets API respect biomial nomenclature within requests?
NCBI Entrez
updated 2.7 years ago by 154k • written 2.7 years ago by ▴ 10
8
votes
9
replies
2.9k
views
Question about RNA-Seq data alignment
STAR Alignment BBMAP RNA-Seq Bowtie
2.7 years ago by mohammedtoufiq91 ▴ 270
0
votes
0
replies
626
views
extractRanges() Errors With DMRcate
DMRcate exactRanges proxy R
2.7 years ago by Indira ▴ 10
0
votes
3
replies
3.0k
views
Samtools mapped and unmapped flags, what is the difference between the flags?
samtools
2.7 years ago by DNAngel ▴ 260
0
votes
0
replies
507
views
Error with FindConservedMarkers()
FindConservedMarkers
2.7 years ago by Chris ▴ 360
0
votes
1
reply
954
views
About bowtie for sRNA mapping
SiRNA bowtie psRNATarget database
updated 2.7 years ago by ★ 2.4k • written 2.7 years ago by ▴ 10
0
votes
10
replies
2.0k
views
Extract gene sequences from multiple fasta using a list from a file:
fasta shell
updated 2.6 years ago by 45k • written 2.7 years ago by • 0
2
votes
1
reply
849
views
Normalizing chip-seq signals with different number of peaks
normalization chip-seq
updated 2.7 years ago by 45k • written 2.7 years ago by ▴ 20
1
vote
3
replies
1.3k
views
database for better classification of illumina contigs
classification illumina contigs NR
updated 2.7 years ago by ★ 1.8k • written 2.7 years ago by ▴ 10
1
vote
3
replies
1.0k
views
How to get genomes related to published paper in NCBI
ncbi bash biopython
updated 2.7 years ago by 154k • written 2.7 years ago by • 0
1
vote
5
replies
1.8k
views
Linux command to edit CHROM column in VCF file
vcf linux
updated 2.7 years ago by 45k • written 2.7 years ago by • 0
4
votes
10
replies
2.3k
views
No localGVCFFolder parameter in config file - problem passing parameter to pipeline
localGVCFFolder config PHG MakeInitialPHGDBPipelinePlugin
2.7 years ago by matt.shenton • 0
2
votes
3
replies
913
views
Uploading data to website using python
Python
updated 2.7 years ago by 5.1k • written 2.7 years ago by • 0
0
votes
6
replies
1.5k
views
expression of the GAT1 transport protein
protein GEO gene
updated 2.7 years ago by 45k • written 2.7 years ago by ▴ 140
7
votes
2
replies
1.2k
views
Eplanation about some code
NGS Sequesncing calling varient VCF
updated 2.7 years ago by 5.1k • written 2.7 years ago by ▴ 60
0
votes
2
replies
1.0k
views
Filetering low reads from vcf file/ download exonic region, coding regions of GRCh38 - hg38
picard gatk vcftools mutect2
2.7 years ago by minoo ▴ 10
8
votes
13
replies
2.9k
views
Mapped reads not mapping to a real sequence?
bam sam samtools kallisto
2.7 years ago by txema.heredia ▴ 250
1
vote
2
replies
1.0k
views
So how would I tell the difference between data structures and abstract data types?
data-structures
2.7 years ago by jessewhite8077 ▴ 20
1
vote
0
replies
555
views
negative outcomes
databases bias
updated 2.7 years ago by 45k • written 2.7 years ago by ▴ 20
0
votes
0
replies
854
views
Job: 015274 UCD Post-doctoral Research Fellow Level 1 or Level 2, School of Biomolecular and Biomedical Science, Temporary 30 months post
Post-doctoral Fellow UCD Level or 2 1 Research
2.7 years ago by rachel.kelly1 • 0
0
votes
0
replies
496
views
Refseq bacterial genomes to clean reads
genomes Bacterial RNA-seq BBSplit contamination
2.7 years ago by AlonsoCid • 0
0
votes
3
replies
1.2k
views
microanalysis of zebrafish genome- Comparison between wild type and mutants
genomics
written 4.3 years ago by • 0
0
votes
0
replies
513
views
How would you handle zeros in Hi-C data?
sequencing genome Hi-C
2.7 years ago by shoko1018 • 0
0
votes
2
replies
1.0k
views
How to perform meta analysis for identification of heterogeneity between gene expression datasets
Meta-analysis Microarray GeneExpression R StatisticalTests
2.6 years ago by Vinesh ▴ 10
0
votes
0
replies
533
views
Clinvar mapping
mapping Clinvar
2.7 years ago by Shweta • 0
4
votes
5
replies
4.2k
views
WGCNA TOM calculation time
RNA-Seq R WGCNA
2.7 years ago by tothepoint ▴ 940
4
votes
2
replies
1.4k
views
installation of bioclite gives an error
R bioclite bioconductor Biocmanager
updated 2.4 years ago by 45k • written 2.7 years ago by ▴ 150
1
vote
2
replies
1.1k
views
NCBI search with ENTREZ biopython last refseq version tag
ncbi biopython
2.7 years ago by marine.bergot • 0
1
vote
1
reply
804
views
Improve the bash code for picard analysis
bash picard slurm
updated 2.7 years ago by 166k • written 2.7 years ago by ▴ 20
0
votes
0
replies
529
views
To be sure: Values in a Affymetrix genome wide SNP Array call
affy SNP6.0
updated 2.6 years ago by 45k • written 2.7 years ago by • 0
0
votes
1
reply
822
views
How to determine the optimal number of clusters?
clustering clusters
updated 2.7 years ago by 11k • written 2.7 years ago by ▴ 70
2
votes
2
replies
1.0k
views
R bug during normalize
seurat R
2.7 years ago by Andy ▴ 120
0
votes
0
replies
641
views
Reference panel when doing ADMIXTURE
admixture
2.7 years ago by Karan ▴ 10
1
vote
4
replies
1.7k
views
Alternatives to ProtExcluder in repeat annotation/MAKER?
repeats esl-fetch annotation ProtExcluder MAKER
2.6 years ago by evoecogen ▴ 30
0
votes
6
replies
3.4k
views
how to get an average ROC curve after 10-fold cross validation in r
r cross-validation curve roc
2.7 years ago by Sara • 0
122,015 results • Page 301 of 2441
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A: Bam And Indexed Bam Files
BCFtools consensus sequence
A: Bam And Indexed Bam Files
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Answer: 1 vs 1 DEG analysis in scrna seq data
Comment: installation of package ‘DESeq2’ had non-zero exit status
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Recent Replies
Answer: 1 vs 1 DEG analysis in scrna seq data by ATpoint 89k
The only option you have is to treat every single cell as a replicate. That has the obvious downside that any effect can be a donor-unique …
Answer: GUI commercial software for 10x single cell gene expression analysis by firestar ★ 1.7k
An open-source option: [kana](https://www.kanaverse.org/kana/).
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Edward • 0
Yes, we plan to make English the primary language of the Brave UI.
Comment: Reasonable number of SNPs in a bacterial genome. by michael.ante ★ 4.0k
If your bacterial species is a (human) pathogen, you might want to check outbreak analysis papers of that species. In general, you find t…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space? by lieven.sterck 16k
ok, missed that ... in any case that should not happen indeed. How did you determine that the files are not equal? I can indeed also see t…
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Ram 45k
Do you have a plan to make an English version of the UI?
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Edward • 0
This can visualize the parameters of the generated workflow, software, and scripts, and manage the docker process of the script, software, …
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by ATpoint 89k
Can you summarize in one sentence what the use case is? Is this a workflow manager?
Comment: Pseudogene - scarce info by ATpoint 89k
This reminds me strongly on my "masters" courses (doesn't deserve that name tbf). "Here is some poorly-described project with little to no …
Answer: scVI vs Harmony, which is better for cell type based clustering in brain tissue? by ATpoint 89k
There is no "better" is my experience. It always depends on the dataset. Try both and integrate your biological knowledge to decide which m…
Comment: DESeq2 on metagenome KO counts by Aleksandra ▴ 190
I just wrote that I misunderstood your initial question.
Comment: DESeq2 on metagenome KO counts by Aleksandra ▴ 190
What exactly did I not get?
Comment: Interpreting genomic features distribution for CUT&RUN peaks by rfran010 ★ 1.7k
If I understand correctly, you see increased signal at TSS sites compared to control (taller peaks in browser). However, 92% of the 450 siS…
Comment: combine VCF from diploid reference/haplotypes for the same sample by cmdcolin ★ 4.3k
this question is a little similar to your previous question (https://www.biostars.org/p/9614638/). just as added info, here is a tool calle…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space? by aj123 ▴ 130
As mentioned above, I just got the raw fastq files from the ftp site listed.
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