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121,984 results • Page 633 of 2440
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1
vote
4
replies
1.1k
views
What is the best short reader to very large reference fasta?
mapping alignment fastq bowtie2 bwa read
4.3 years ago by O.rka ▴ 750
7
votes
5
replies
2.1k
views
On whether or not to normalize scRNAseq expression like qPCR
single-cell qpcr rnaseq
updated 4.3 years ago by 22k • written 4.3 years ago by ▴ 380
2
votes
16
replies
8.9k
views
11 follow
PSMC: fq2psmc conversion problems
PSMC conversion fastq psmcfa
updated 3.4 years ago by ▴ 40 • written 7.1 years ago by ★ 3.1k
3
votes
11
replies
2.7k
views
How to associate a gene to one general function?
gene function
4.3 years ago by Francois Piumi ▴ 70
0
votes
2
replies
1.2k
views
BED Heatmap
ChIP-seq
updated 4.3 years ago by 45k • written 4.3 years ago by ▴ 110
3
votes
7
replies
3.9k
views
6 follow
PSMC Illegal division by zero
genome software error sequence
3.8 years ago by YocelynGG ▴ 70
2
votes
5
replies
3.4k
views
snakemake job status monitoring
snakemake pipelines
4.3 years ago by Eugene A ▴ 190
1
vote
3
replies
1.3k
views
Read alignment anomaly
igv reads rna-seq
4.3 years ago by daewowo ▴ 80
4
votes
3
replies
1.1k
views
which genes causes breast cancer?
Breast Cancer
updated 4.3 years ago by 56k • written 4.3 years ago by • 0
4
votes
4
replies
1.3k
views
analysis of novel SARS-CoV-2 genomes
processing phylogenetics analysis COVID19
updated 4.3 years ago by 154k • written 4.3 years ago by ▴ 140
6
votes
6
replies
2.8k
views
How to generate GTF file from BLAST output?
GTF
4.3 years ago by mathavanbioinfo ▴ 80
13
votes
12
replies
3.2k
views
How to determine reasonable expression threshold for of a gene from scRNAseq to imply its biological significance
statistics single-cell rnaseq
4.3 years ago by gundalav ▴ 380
0
votes
0
replies
604
views
When to use Pharmacophore and QSAR, in which conditions.
design Drug
4.3 years ago by Sachidanand • 0
38
votes
8
replies
55k
views
11 follow
Adding Read Groups To Bam Files
bam gatk samtools bwa
updated 4.3 years ago by 12k • written 13.3 years ago by 12k
1
vote
8
replies
2.0k
views
Seqff.r script is giving error while running
R
4.3 years ago by smrutimayipanda ▴ 20
1
vote
1
reply
3.6k
views
Interpret Clustal Omega Distance/Percent Identity Output for Multiple Proteins
Omega Clustal similarity sequence
updated 4.3 years ago by ★ 30k • written 4.3 years ago by ▴ 50
0
votes
0
replies
602
views
Detecting genetic mutation with raw data
mutation Krt1 genetic hyperkeratosis krt10
4.3 years ago by Amanda • 0
4
votes
5
replies
1.5k
views
Are there any statistical method is suitable to solve
z-test
updated 2.8 years ago by 45k • written 4.3 years ago by ▴ 120
2
votes
4
replies
45k
views
python 3.8 'No module named pip'
rna-seq
updated 4.3 years ago by ▴ 10 • written 5.3 years ago by • 0
0
votes
1
reply
922
views
Downloading bacterial reference genome
reference genome
updated 4.3 years ago by 8.7k • written 4.3 years ago by • 0
0
votes
1
reply
936
views
Where to get the human mitochondiral reference genome?
GTF human genome mitochondiral
updated 4.3 years ago by 154k • written 4.3 years ago by ▴ 80
2
votes
4
replies
1.3k
views
Advantages of split by chromosome?
cnv split gatk
updated 4.3 years ago by 166k • written 4.3 years ago by ▴ 20
5
votes
4
replies
3.4k
views
distance matrix as input in R clustering functions ?
k-medioids-genetic-distances-mash R Clustering
updated 4.3 years ago by 27k • written 4.3 years ago by ▴ 140
0
votes
0
replies
596
views
missing calls for a vcf file
SNP
4.3 years ago by evafinegan • 0
5
votes
7
replies
2.9k
views
How to find the functions of Reactome pathways?
Pathways reactome pathways DAVID
updated 4.3 years ago by ▴ 590 • written 7.4 years ago by ▴ 260
0
votes
0
replies
729
views
ANOVA testing
R ANOVA p-values
4.3 years ago by ehruan ▴ 10
1
vote
1
reply
1.6k
views
Plink error: Variant names are limited to 16000 characters.
plink imputation
updated 4.3 years ago by 12k • written 4.3 years ago by ▴ 10
1
vote
5
replies
3.0k
views
Job: Computational Biologist position at the University of Alabama at Birmingham
UAB Transcriptomics Computational
updated 4.3 years ago by 45k • written 4.4 years ago by ▴ 20
0
votes
3
replies
2.6k
views
Job: Statistical Bioinformatics Laboratory Head, WEHI, Melbourne, Australia
Australia
updated 2.3 years ago by 45k • written 4.5 years ago by ★ 8.3k
4
votes
9
replies
2.7k
views
randomly sampling long read data for genome assembly
pacbio assembly genome
4.3 years ago by jleehan ▴ 120
3
votes
8
replies
4.1k
views
Correlation plot
Correlation R corrplot
updated 4.3 years ago by ▴ 160 • written 4.3 years ago by ▴ 180
3
votes
5
replies
1.3k
views
6 follow
What genes are mutated in Lukemia?
Lukemia
updated 4.3 years ago by 11k • written 4.3 years ago by • 0
2
votes
4
replies
4.2k
views
TCGA Sample barcode
Tumor Barcode Normal TCGA
updated 4.3 years ago by 6.1k • written 4.3 years ago by ▴ 60
0
votes
1
reply
727
views
combine metagenomic assemblies using cat?
Assembly
updated 4.3 years ago by 3.9k • written 4.3 years ago by ▴ 60
0
votes
5
replies
1.2k
views
Find sequence/variants from ancient-DNA genomes
DNA ancient
updated 4.3 years ago by 2.9k • written 4.3 years ago by • 0
4
votes
12
replies
2.7k
views
Multifactor Design For RNA-seq Analysis
Rna-seq batch correction DESeq2 multifactor
4.3 years ago by David Martínez ▴ 10
2
votes
2
replies
1.1k
views
Best hit from BLAST for a particular genomic region
genomic blast region best hit evalue
updated 4.3 years ago by 36k • written 4.3 years ago by ▴ 20
3
votes
4
replies
2.1k
views
Proportion of RNAseq reads mapping to rRNA, tRNA, mRNA, and intergenic or antisense regions of the genome?
GTF featureCounts NGS GFF
updated 4.3 years ago by 22k • written 4.3 years ago by ▴ 80
12
votes
9
replies
7.6k
views
Good annotation databases for a VCF file (somatic variants)
VCF ANNOVAR somatic databases annotation
updated 4.3 years ago by ▴ 130 • written 4.4 years ago by ▴ 110
8
votes
9
replies
2.3k
views
superimpose
discovery ds visualizer
4.3 years ago by Alex ▴ 20
0
votes
2
replies
1.0k
views
X-transposed region on chromosome Y
chromosome-X CNV
updated 2.8 years ago by 45k • written 4.3 years ago by • 0
0
votes
0
replies
642
views
How to run PWM scan with hundreds of PWM at the same time?
PWMScan ATAC-seq PWMtools
4.3 years ago by juanpjlozano • 0
0
votes
7
replies
2.0k
views
How to increase the number of matched sequences in blastn
mismatch blastn
updated 4.3 years ago by ★ 2.9k • written 4.3 years ago by • 0
1
vote
6
replies
2.2k
views
Unable to update Rstudio
updateR
updated 4.3 years ago by 89k • written 4.3 years ago by • 0
0
votes
0
replies
1.6k
views
HOMER annotatepeaks.pl
ChIP-Seq HOMER sequencing next-gen
4.3 years ago by jjp55 ▴ 20
3
votes
4
replies
2.6k
views
6 follow
Segmentation fault in bcftools while changing the sample names
vcftools bcftools
updated 4.3 years ago by 154k • written 4.5 years ago by ▴ 340
3
votes
6
replies
1.9k
views
Convert sam file with no header to fastq
fastq sam gatk
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 80
2
votes
3
replies
1.2k
views
Splice site impact
sites Splice
updated 4.3 years ago by 24k • written 4.3 years ago by • 0
0
votes
3
replies
1.4k
views
mapping with bfast killed when created index
bfast mapping index
updated 4.3 years ago by 13k • written 4.3 years ago by ★ 1.3k
0
votes
1
reply
1.1k
views
How to view large PPI network in STRING database?
PPI large network STRING
updated 4.3 years ago by 27k • written 4.3 years ago by ▴ 80
121,984 results • Page 633 of 2440
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Answer: Quantification using salmon in alignment-based mode after minimap2 run
Comment: Quantification using salmon in alignment-based mode after minimap2 run
Answer: Corresponding BAM files
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Is this an appropriate command for estimating contaminatin in a germline WGS sample using GATK?
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Comment: Difficulty running FoldX in linux by Mensur Dlakic ★ 30k
The program is definitely working. It doesn't matter that it didn't produce `TER` and `END` lines at the end. Those are optional in PDB fil…
Answer: Best set of tools / workflows for predicting the biosynthesis pathways of comple by ehaag ▴ 100
I tried [searching for tools in the NIAID Data Ecosystem][1] and found something that may be relevant. [PathPred][2] is an enzyme catalyzed…
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I did a quick [search for tools in the NIAID Data Ecosystem][1] and found a few that map Illumina short reads onto a reference genome, incl…
Answer: Corresponding BAM files by GenoMax 154k
You can get BAM files for 10x single-cell data and they can be found under the `Data Access` tab of the SRA record under the `Original Form…
Comment: GTF file for HIV strain pNL4-3 by Ales ▴ 50
All of the genome assemblies are from the LANL compendiu, match accession with GENBANK (>2,000 complete genome assemblies from the 2021 LAN…
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Comment: GTF file for HIV strain pNL4-3 by GenoMax 154k
> This project started from my personal need to improve spliced alignment Are there plans to submit these annotations to NCBI/EBI? Are yo…
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Interestingly, HIV/SIV specifically does have quite an elaborate splicing system which regulates translation. However, only one of the spli…
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I'm late to the party but in case someone has the same question: one practical approach is using **rank-based** methods to meta-analyse you…
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I'm late to the party but one practical approach is using **rank-based** methods to meta-analyse your screens, which basically bypass the n…
Comment: convert genome file to transcriptome file by Ales ▴ 50
Should be noted that the gtf/gff and genomic.fna files for HIV only contain CDS annotations of the 9 ORFs and not the full transcripts. Onl…
Comment: GTF file for HIV strain pNL4-3 by Ales ▴ 50
just wanted to follow up that to address this specific issue we just released HIV transcriptome annotations of alternative splicing featuri…
Answer: GTF file for HIV strain pNL4-3 by Ales ▴ 50
For anyone stumbling on this. We have recently completed reference-grade annotation for several thousand HIV-1 genomes including the HXB2 (…
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Yes, I found all the barcodes, but could working on WSL affect the basecalling results?
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Since I was running in stub-run mode, the solution was to make unique names for the FASTQC process like this: touch ${sample}_${rea…
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