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122,013 results • Page 602 of 2441
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0
votes
10
replies
2.3k
views
ImputewithPHG_main:fastq
PHG
updated 4.2 years ago by 154k • written 4.2 years ago by • 0
0
votes
1
reply
598
views
Pairwise comparison of AA fasta files which contain multiple domains
R
updated 4.2 years ago by ★ 30k • written 4.2 years ago by • 0
0
votes
0
replies
729
views
Is there an easily implementable analysis (R based) for copy number, ROH, mosaicism, and ploidy in R using Illumina 850K SNP array data?
Illumina array Omni SNP 850K data
4.2 years ago by Jng • 0
1
vote
4
replies
1.9k
views
Does scRNA-seq Tabula Sapiens store: counts or log2( 1+counts ) or most probably something else ?
scRNA-seq scRNAseq TabulaSapiens
4.2 years ago by Alexander ▴ 220
1
vote
2
replies
628
views
jActiveModules - alternative.
cytoscape
4.2 years ago by rin ▴ 40
1
vote
6
replies
2.7k
views
Has anyone here gotten Segmentation Faults when trying to use Clustal Omega?
Clustal segmentation_fault
updated 4.2 years ago by 22k • written 4.2 years ago by ▴ 10
1
vote
6
replies
5.0k
views
Preparing ChIP-seq data for analysis with DESeq2
DESeq2 ChIP-seq
updated 3.8 years ago by • 0 • written 4.4 years ago by ▴ 30
5
votes
7
replies
9.7k
views
put data into tertile groups in Excel
excel
4.2 years ago by Nona ▴ 90
1
vote
0
replies
774
views
How to extract intergenic regions
intergenic region
4.2 years ago by Ak ▴ 60
3
votes
1
reply
1.1k
views
Is reclustering of a cluster obtained from hierarchical clustering "allowed"?
analysis cluster hierarchical clustering
updated 4.2 years ago by ★ 3.0k • written 4.2 years ago by ▴ 70
0
votes
0
replies
697
views
How to easily summarize counts from different exon under the same gene
featureCounts gene exon
updated 4.2 years ago by 89k • written 4.2 years ago by • 0
0
votes
0
replies
518
views
how to select SNPs at regular intervals based on their physical positions?
R
4.2 years ago by blacktomato27 ▴ 70
0
votes
0
replies
584
views
Differential expression to compare genes between brain regions (Allen Mouse Brain Atlas)
expression differential comparison allen atlas
4.2 years ago by dekel ▴ 10
0
votes
0
replies
915
views
Job: Bioinformatician | Clinical Data | Newcastle UK
next-gen RNA-Seq medicine clinical variant
4.2 years ago by dasha.deen • 0
12
votes
7
replies
10k
views
clusterprofiler: How to extract genes of a specific GO-term/pathway
clusterprofiler GO-term goterm go term analysis
updated 2.3 years ago by ▴ 260 • written 5.2 years ago by ▴ 60
9
votes
10
replies
3.2k
views
problem with no replicate data analysis
RNA-Seq
updated 3.3 years ago by 45k • written 4.2 years ago by ▴ 10
2
votes
1
reply
2.1k
views
Using vcftools and got Error: Unknown option: --max-missing
vcftools
updated 4.2 years ago by ▴ 270 • written 4.2 years ago by ▴ 10
3
votes
2
replies
4.4k
views
UMI counts and read counts in GeneGlobe output
UMI GeneGlobe
4.2 years ago by Abhishek • 0
0
votes
0
replies
998
views
DESeq2: difficulty with contrasts and main effects
phyloseq DESeq2
updated 4.2 years ago by 89k • written 4.2 years ago by • 0
2
votes
1
reply
1.8k
views
how to adjust deeptools computeMatrix graph
bigwig deeptools heatmap
updated 4.2 years ago by 9.0k • written 4.2 years ago by ▴ 10
0
votes
14
replies
2.9k
views
analyzing cel files
chip snp
updated 4.2 years ago by 4.2k • written 4.2 years ago by • 0
0
votes
3
replies
1.3k
views
What is the best way to get all bacteria proteins from nr?
protists database nr
updated 4.2 years ago by 154k • written 4.2 years ago by ▴ 750
3
votes
7
replies
3.8k
views
6 follow
Online BLAST search using R
BLAST R
updated 20 months ago by ▴ 150 • written 4.2 years ago by ▴ 20
2
votes
5
replies
3.1k
views
rRNA rate from RNA seq data- Qualimap
quality-control Qualimap RNAseq
4.2 years ago by Ahmed.waraky ▴ 10
0
votes
1
reply
871
views
RNAseq quality control-rRNA rate
rRNA rate RNAseq
updated 4.2 years ago by 45k • written 4.2 years ago by ▴ 10
0
votes
1
reply
1.1k
views
Finding lncRNA using cufflinks
lncRNA cuffcompare cufflinks
updated 4.2 years ago by 45k • written 4.2 years ago by ▴ 50
0
votes
2
replies
1.2k
views
RNA-SeQC
RNA-SeQC RNAseq
updated 4.2 years ago by ▴ 300 • written 4.2 years ago by ▴ 10
1
vote
0
replies
409
views
Determining genes that varying along disease trajectory
rna-seq
4.2 years ago by sobethon ▴ 10
0
votes
0
replies
541
views
Dispersion in read numbers
FASTQ RNA-seq BAM
updated 4.2 years ago by 45k • written 4.2 years ago by ▴ 10
1
vote
1
reply
1.1k
views
kraken2 read assignment: difference between G and G1?
unclassified kraken2 genus
4.2 years ago by cjb ▴ 10
1
vote
2
replies
1.4k
views
RNASEQ differential expression of paired samples
Differential-expression RNASEQ
4.2 years ago by hans ▴ 20
13
votes
8
replies
3.0k
views
6 follow
Forum: Why do bioinformatics scientists collaborate and why that's good for science?
Bioinformatics
updated 4.2 years ago by 103k • written 4.2 years ago by ▴ 50
0
votes
10
replies
2.5k
views
Qualitative Comparison of 2 scRNAseq analyses
Seurat scRNA mt.reads
4.2 years ago by ConfusedSheep ▴ 10
0
votes
1
reply
863
views
Filter peaks based on coverage
eCLIP ChIP-seq
updated 4.2 years ago by ★ 1.7k • written 4.2 years ago by ▴ 110
0
votes
3
replies
3.0k
views
Error with installing CrossMap
CrossMap
updated 4.2 years ago by 45k • written 4.6 years ago by • 0
1
vote
2
replies
1.4k
views
Remove adpater from reads
trimming adpater cutadapt
updated 4.2 years ago by ★ 2.2k • written 4.2 years ago by ▴ 70
3
votes
3
replies
1.9k
views
What QC measures to look for when performing deconvolution?
QC CibersortX deconvolution
updated 3.8 years ago by ★ 9.6k • written 4.2 years ago by ▴ 390
3
votes
4
replies
3.7k
views
the --fraction option of featureCounts
RNA-Seq featureCounts rna-seq genome sequencing
4.2 years ago by Apex92 ▴ 320
1
vote
1
reply
1.7k
views
Need some help with next steps after getting fGSEA results from Microarray data.
microarray differential expression analysis fGSEA
updated 4.2 years ago by ▴ 20 • written 5.0 years ago by ▴ 110
0
votes
0
replies
3.3k
views
Seurat object
seuratobject seurat
updated 4.2 years ago by 9.0k • written 4.2 years ago by ▴ 20
0
votes
1
reply
795
views
Does genes for different subunits of a protein have different KO IDs?
kegg
updated 4.2 years ago by 3.9k • written 4.2 years ago by ▴ 250
0
votes
4
replies
2.4k
views
how to speed up SNP calling using bcftools
bcftools
updated 4.2 years ago by 45k • written 4.2 years ago by ▴ 60
2
votes
10
replies
3.6k
views
Why do I still have missing values in my gene list, even after cooksCutoff and independentFiltering have been set to FALSE ?
DESEQ2 missing symbol gene values
4.2 years ago by Sukrit • 0
0
votes
1
reply
791
views
Gene ontology
bn
updated 4.2 years ago by ▴ 520 • written 4.2 years ago by • 0
2
votes
2
replies
2.2k
views
Would you use HMMSCAN or HMMSEARCH when the query is much larger than the database?
nr hmmsearch hmmer hmm hmmscan
4.2 years ago by O.rka ▴ 750
0
votes
1
reply
737
views
Reading miRNA expression
cross-mapped read_count miRNA_ID reads_per_million_miRNA_mapped
updated 4.2 years ago by ★ 1.3k • written 4.2 years ago by • 0
0
votes
2
replies
1.0k
views
expression trend during cancer progression
T-stage
4.2 years ago by Amir.Asgary ▴ 30
5
votes
4
replies
8.6k
views
plot-vcfstats
bcftools snp vcf stats
4.2 years ago by rheab1230 ▴ 150
0
votes
2
replies
1.2k
views
parse out an EMBL record from a (file)
python
updated 4.2 years ago by 21k • written 4.2 years ago by ▴ 20
1
vote
0
replies
929
views
Why does STRUCTURE v2.3.4 (command line) does not work?
STRUCTURE SNPs bash
4.2 years ago by giulia.trauzzi ▴ 30
122,013 results • Page 602 of 2441
Recent Votes
Answer: Recommendations for 200 SNP markers genotyping
Comment: Reasonable number of SNPs in a bacterial genome.
The Biostar Handbook. A bioinformatics e-book for beginners.
Genome Assembly QC from BAM files
Answer: Scaling RNA-Seq data before clustering?
Answer: Scaling RNA-Seq data before clustering?
Online course: RNA sequencing data analysis using R and Bioconductor - 3–14 November
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Recent Replies
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.
Comment: DESeq2 on metagenome KO counts by ATpoint 89k
This statement makes zero sense in response to what I wrote.
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