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121,410 results • Page 621 of 2429
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0
votes
8
replies
2.1k
views
Inconsistency in SNP calls using bcftools merge for multiple vcf files
bcftools vcf snp
4.0 years ago by evafinegan • 0
2
votes
1
reply
608
views
Incrementally updating index files for Blast and for Bowtie2
blast index bowtie
updated 4.0 years ago by 152k • written 4.0 years ago by ▴ 30
1
vote
4
replies
2.0k
views
RNA-seq differential analysis with N batches and a technical replicate in each batch
RNA-Seq deseq2 differential analysis edger
updated 4.0 years ago by • 0 • written 5.4 years ago by • 0
0
votes
1
reply
1.5k
views
Five-parameter logistic (5PL) regression - Python or R ?
Bioassay 5PL Python R
updated 4.0 years ago by ▴ 90 • written 4.0 years ago by • 0
4
votes
2
replies
1.0k
views
Presence of proteins in a group of organisms
proteins restriction BLAST
updated 4.0 years ago by 35k • written 4.0 years ago by ▴ 30
2
votes
2
replies
849
views
Unable to read fasta file
fasta
updated 2.2 years ago by 45k • written 4.0 years ago by • 0
1
vote
4
replies
977
views
What is the best short reader to very large reference fasta?
mapping alignment fastq bowtie2 bwa read
4.0 years ago by O.rka ▴ 740
7
votes
5
replies
1.8k
views
On whether or not to normalize scRNAseq expression like qPCR
single-cell qpcr rnaseq
updated 4.0 years ago by 21k • written 4.0 years ago by ▴ 380
2
votes
16
replies
8.3k
views
11 follow
PSMC: fq2psmc conversion problems
PSMC conversion fastq psmcfa
updated 3.1 years ago by ▴ 40 • written 6.8 years ago by ★ 3.0k
3
votes
11
replies
2.5k
views
How to associate a gene to one general function?
gene function
4.0 years ago by Francois Piumi ▴ 70
0
votes
2
replies
1.1k
views
BED Heatmap
ChIP-seq
updated 4.0 years ago by 45k • written 4.0 years ago by ▴ 80
3
votes
7
replies
3.6k
views
6 follow
PSMC Illegal division by zero
genome software error sequence
3.5 years ago by YocelynGG ▴ 70
2
votes
5
replies
3.0k
views
snakemake job status monitoring
snakemake pipelines
4.0 years ago by Eugene A ▴ 190
1
vote
3
replies
1.2k
views
Read alignment anomaly
igv reads rna-seq
4.0 years ago by daewowo ▴ 80
4
votes
3
replies
986
views
which genes causes breast cancer?
Breast Cancer
updated 4.0 years ago by 55k • written 4.0 years ago by • 0
4
votes
4
replies
1.1k
views
analysis of novel SARS-CoV-2 genomes
processing phylogenetics analysis COVID19
updated 4.0 years ago by 152k • written 4.0 years ago by ▴ 140
6
votes
6
replies
2.5k
views
How to generate GTF file from BLAST output?
GTF
4.0 years ago by mathavanbioinfo ▴ 80
13
votes
12
replies
2.9k
views
How to determine reasonable expression threshold for of a gene from scRNAseq to imply its biological significance
statistics single-cell rnaseq
4.0 years ago by gundalav ▴ 380
0
votes
0
replies
515
views
When to use Pharmacophore and QSAR, in which conditions.
design Drug
4.0 years ago by Sachidanand • 0
38
votes
8
replies
55k
views
11 follow
Adding Read Groups To Bam Files
bam gatk samtools bwa
updated 4.0 years ago by 12k • written 13.0 years ago by 12k
1
vote
8
replies
1.9k
views
Seqff.r script is giving error while running
R
4.0 years ago by smrutimayipanda ▴ 20
1
vote
1
reply
3.3k
views
Interpret Clustal Omega Distance/Percent Identity Output for Multiple Proteins
Omega Clustal similarity sequence
updated 4.0 years ago by ★ 29k • written 4.0 years ago by ▴ 50
0
votes
0
replies
537
views
Detecting genetic mutation with raw data
mutation Krt1 genetic hyperkeratosis krt10
4.0 years ago by Amanda • 0
4
votes
5
replies
1.4k
views
Are there any statistical method is suitable to solve
z-test
updated 2.5 years ago by 45k • written 4.0 years ago by ▴ 120
2
votes
4
replies
44k
views
python 3.8 'No module named pip'
rna-seq
updated 4.0 years ago by ▴ 10 • written 5.0 years ago by • 0
0
votes
1
reply
841
views
Downloading bacterial reference genome
reference genome
updated 4.0 years ago by 8.7k • written 4.0 years ago by • 0
0
votes
1
reply
862
views
Where to get the human mitochondiral reference genome?
GTF human genome mitochondiral
updated 4.0 years ago by 152k • written 4.0 years ago by ▴ 80
2
votes
4
replies
1.2k
views
Advantages of split by chromosome?
cnv split gatk
updated 4.0 years ago by 166k • written 4.0 years ago by ▴ 20
5
votes
4
replies
3.3k
views
distance matrix as input in R clustering functions ?
k-medioids-genetic-distances-mash R Clustering
updated 4.0 years ago by 27k • written 4.0 years ago by ▴ 140
0
votes
0
replies
553
views
missing calls for a vcf file
SNP
4.0 years ago by evafinegan • 0
5
votes
7
replies
2.7k
views
How to find the functions of Reactome pathways?
Pathways reactome pathways DAVID
updated 4.0 years ago by ▴ 580 • written 7.1 years ago by ▴ 260
0
votes
0
replies
658
views
ANOVA testing
R ANOVA p-values
4.0 years ago by ehruan ▴ 10
1
vote
1
reply
1.5k
views
Plink error: Variant names are limited to 16000 characters.
plink imputation
updated 4.0 years ago by 12k • written 4.0 years ago by ▴ 10
1
vote
5
replies
2.7k
views
Job: Computational Biologist position at the University of Alabama at Birmingham
UAB Transcriptomics Computational
updated 4.0 years ago by 45k • written 4.1 years ago by ▴ 20
0
votes
3
replies
2.4k
views
Job: Statistical Bioinformatics Laboratory Head, WEHI, Melbourne, Australia
Australia
updated 2.0 years ago by 45k • written 4.2 years ago by ★ 8.2k
4
votes
9
replies
2.4k
views
randomly sampling long read data for genome assembly
pacbio assembly genome
4.0 years ago by jleehan ▴ 120
3
votes
8
replies
3.8k
views
Correlation plot
Correlation R corrplot
updated 4.0 years ago by ▴ 160 • written 4.0 years ago by ▴ 180
3
votes
5
replies
1.1k
views
6 follow
What genes are mutated in Lukemia?
Lukemia
updated 4.0 years ago by 11k • written 4.0 years ago by • 0
2
votes
4
replies
3.3k
views
TCGA Sample barcode
Tumor Barcode Normal TCGA
updated 4.0 years ago by 6.1k • written 4.0 years ago by ▴ 60
0
votes
1
reply
656
views
combine metagenomic assemblies using cat?
Assembly
updated 4.0 years ago by 3.9k • written 4.0 years ago by ▴ 60
0
votes
5
replies
1.1k
views
Find sequence/variants from ancient-DNA genomes
DNA ancient
updated 4.0 years ago by 2.9k • written 4.0 years ago by • 0
4
votes
12
replies
2.5k
views
Multifactor Design For RNA-seq Analysis
Rna-seq batch correction DESeq2 multifactor
4.0 years ago by David Martínez ▴ 10
2
votes
2
replies
1.0k
views
Best hit from BLAST for a particular genomic region
genomic blast region best hit evalue
updated 4.0 years ago by 36k • written 4.0 years ago by ▴ 20
3
votes
4
replies
1.8k
views
Proportion of RNAseq reads mapping to rRNA, tRNA, mRNA, and intergenic or antisense regions of the genome?
GTF featureCounts NGS GFF
updated 4.0 years ago by 21k • written 4.0 years ago by ▴ 80
12
votes
9
replies
6.9k
views
Good annotation databases for a VCF file (somatic variants)
VCF ANNOVAR somatic databases annotation
updated 4.0 years ago by ▴ 130 • written 4.1 years ago by ▴ 110
8
votes
9
replies
2.1k
views
superimpose
discovery ds visualizer
4.0 years ago by Alex ▴ 20
0
votes
2
replies
918
views
X-transposed region on chromosome Y
chromosome-X CNV
updated 2.5 years ago by 45k • written 4.0 years ago by • 0
0
votes
0
replies
594
views
How to run PWM scan with hundreds of PWM at the same time?
PWMScan ATAC-seq PWMtools
4.0 years ago by juanpjlozano • 0
0
votes
7
replies
1.7k
views
How to increase the number of matched sequences in blastn
mismatch blastn
updated 4.0 years ago by ★ 2.9k • written 4.0 years ago by • 0
1
vote
6
replies
1.9k
views
Unable to update Rstudio
updateR
updated 4.0 years ago by 88k • written 4.0 years ago by • 0
121,410 results • Page 621 of 2429
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Comment: How to convert from .spec to .bam?
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A: GSVA on RNAseq data (GTEX)
GSVA on RNAseq data (GTEX)
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GSVA kernels: Gaussian or Poisson?
how to use filter_vep to filter vcf file
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Comment: identify unmapped regions by GenoMax 152k
> We've created a coverage file of the aligments against the GRCh38 reference genome Are you referring to regions that are hard to align r…
Comment: filters used in mutation discovery from RNAseq data by GenoMax 152k
One line questions are never a good way to describe what you are trying to do and without that information you are not likely to get any us…
Answer: martCheck - Error - You must provide a valid Mart object - for running HoneyBADG by mete.han.celebi • 0
Hello everyone, I have fixed the issue. Here how I fixed: mart.obj <- useMart( biomart = "ENSEMBL_MART_ENSEMBL", da…
Answer: How to Specify Power Parameter for Adjacency in modulePreservation() (WGCNA) by andres.firrincieli 3.9k
multiData can contain your adjacency matrices. Then in `modulePreservation()` set `dataIsExpr = FALSE`
Comment: Should matched samples (not paired) be included in the DESeq2 design model? by i.sudbery 21k
No thats not what I mean. When you run DESeq, if fits values to each of the coeffients that you specify. You then compute p-values on som…
Comment: Single-cell RNA Sequencing - transcript abundance estimation using Alevin-Fry by wooh • 0
Thank you that makes sense. When previously doing this it seemed the quantification result had assigned exact equal values of two transcrip…
Comment: Trajectory Analysis scRNA-seq with one cell type and two developmental stages by npont ▴ 10
Yes I would agree for clustering, but the way I define my cell type is not based on clustering: I define cells as being of my type of inter…
Comment: Should matched samples (not paired) be included in the DESeq2 design model? by marieke • 0
Ah yes, looking at the PCA makes sense, thanks! I'm not sure I understand your last paragraph, though. With 'running tests', do you mean r…
Comment: Trouble Using GEO Files with Seurat by Jamie • 0
Thank you so much @antonioggsousa! You've helped me a lot!
Comment: Trajectory Analysis scRNA-seq with one cell type and two developmental stages by Bastien Hervé 6.4k
It makes sense to me to give it a try like this, however along the way depending on your batch effect correction or your pseudotime sanity …
Answer: Insert size is zero by GenoMax 152k
It is possible, if your have libraries that failed and are just adapter dimers. You could also try `bbmerge.sh` from BBMap suite to get a…
Comment: How to convert from .spec to .bam? by Daniel Lai ▴ 10
https://github.com/molonc/spec-1.3.2
Comment: Trouble Using GEO Files with Seurat by 1769mkc ★ 1.3k
merge and the scanpy anndata.concat are they doing exactly same?
Comment: Trajectory Analysis scRNA-seq with one cell type and two developmental stages by npont ▴ 10
Hello, Thank you for your reply Indeed visium HD goes down to 2um resolution but I applied a nuclei segmentation which worked pretty nicel…
Answer: Should matched samples (not paired) be included in the DESeq2 design model? by i.sudbery 21k
You add an extra covariate to the design matrix when you expect that it will explain some of the variance in gene expression. In general, i…
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