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121,832 results • Page 606 of 2437
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0
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2
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1.7k
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VCF combination for common variants
dataframe VCF R
updated 4.1 years ago by 45k • written 4.1 years ago by ▴ 20
6
votes
4
replies
1.6k
views
Forum: What are the major advances in Bioinformatics since 2016
Bioinformatics
updated 2.5 years ago by 45k • written 4.1 years ago by ▴ 40
1
vote
0
replies
1.1k
views
Is it wrong to deconvolute bulk RNA seq data of a tissue using scRNAseq data of a different tissue?
deconvolution single-cell rna-seq
updated 3.2 years ago by 45k • written 4.1 years ago by ▴ 10
1
vote
2
replies
1.2k
views
I want to make a graph for conserved regions
COVID-19 MSA Conserved-regions
4.1 years ago by sa.youssef • 0
1
vote
0
replies
739
views
Forum: Potential applications of the AlfaFold ?
protein-folding
updated 4.1 years ago by 89k • written 4.1 years ago by ▴ 220
0
votes
1
reply
1.4k
views
Comparison of two similar datasets with SCENIC
scrnaseq scRNA-Seq SCENIC GRN compare
updated 4.1 years ago by ★ 1.7k • written 4.1 years ago by • 0
2
votes
6
replies
2.7k
views
Understanding Gene Set Enrichment Analysis (GSEA) Tools in RNA-Seq
deseq2 pantherdb msigdb
updated 4.1 years ago by ▴ 320 • written 4.1 years ago by ▴ 20
0
votes
0
replies
607
views
Meta module definition
Wgcna eigengenes network
updated 4.1 years ago by 45k • written 4.1 years ago by ▴ 90
1
vote
1
reply
872
views
Plot a network based on correlation
correlation plot network RNAseq
updated 4.1 years ago by 89k • written 4.1 years ago by ▴ 130
0
votes
4
replies
1.9k
views
FASTQ headers need additional info?
format FASTQ
4.1 years ago by Anand Rao ▴ 640
0
votes
1
reply
1.6k
views
Designing CNV analysis assay on Digital PCR
dPCR mitochondrial DNA CNV
updated 4.1 years ago by • 0 • written 8.1 years ago by • 0
0
votes
1
reply
1.0k
views
Pre-processing of BAMs before indel calling
indels DNA-seq bwa-mem bowtie2
updated 4.1 years ago by ★ 1.3k • written 4.1 years ago by ▴ 30
3
votes
1
reply
2.9k
views
What is the recommended contig length to filter?
metaspades
updated 4.1 years ago by ★ 29k • written 4.1 years ago by ▴ 260
0
votes
0
replies
787
views
PANTHER Gene List Analysis - Duplicate Genes (RNASeq Data)
DESeq2 pantherDB
4.1 years ago by Noah E. ▴ 20
0
votes
0
replies
889
views
CreateSomaticPanelOfNormals
GATK CreateSomaticPanelOfNormals PON
4.1 years ago by jhy ▴ 10
0
votes
0
replies
874
views
Modifying Genbank Contamination File for Bedtools
Genome-Assembly Linux
updated 4.1 years ago by 45k • written 4.1 years ago by ▴ 20
3
votes
6
replies
3.3k
views
how to filter out all the homozygous genotypes in a multi sample VCF file?
vcf
4.1 years ago by Nahid Bandi K • 0
9
votes
7
replies
8.6k
views
Aligning MiSeq targeted amplicons (ultra-deep sequencing)
Targeted-Sequencing MiSeq ultra-deep BWA Alignment
updated 3.7 years ago by 45k • written 11.0 years ago by ▴ 130
0
votes
0
replies
796
views
How do I make bwa-mem and bowtie2 less stringent?
DNA-seq bwa-mem bowtie2
4.1 years ago by gt ▴ 30
0
votes
2
replies
1.4k
views
How to extract reads for HLAscan
HLA genotyping NGS
4.1 years ago by from the mountains ▴ 250
2
votes
1
reply
1.5k
views
How were CCLE SNPs annotated?
annotation CCLE SNP
4.1 years ago by A. Domingues ★ 2.7k
0
votes
2
replies
1.1k
views
inquiry related to rsid
TWAS vcf rsid predixcan
updated 2.5 years ago by 45k • written 4.1 years ago by ▴ 150
1
vote
4
replies
4.7k
views
Sequencing depth with 10x Genomics
10x cell RNA-seq single
updated 4.1 years ago by ★ 19k • written 4.1 years ago by ▴ 10
1
vote
0
replies
766
views
Tool: BIRCH Bioinformatics System v3.80
alignment RNA-seq genome assembly sequence phylogeny
4.1 years ago by brian.fristensky ▴ 460
1
vote
4
replies
1.6k
views
guilt by association
pathways analyses R
4.1 years ago by pinheirofabiano ▴ 130
1
vote
17
replies
4.8k
views
SNP filtering
vcf SNP
updated 2.5 years ago by 45k • written 4.1 years ago by ▴ 150
0
votes
0
replies
760
views
RNA-seq differential expression analysis at specific defined intervals (downstream 1kb adjacent region to repetitive elements)
RNA-seq
4.1 years ago by jennxyzhang • 0
0
votes
0
replies
741
views
Multiome analysis: MAESTRO or Cell Ranger ACR
intergration multiome scRNA-seq scATAC-seq data
4.1 years ago by enh • 0
1
vote
2
replies
1.5k
views
BOLT-LMM error ERROR: 6:63979:C:T has Phased = 2 (not 0)
bgen bolt-lmm
updated 2.3 years ago by 45k • written 4.1 years ago by ▴ 10
0
votes
4
replies
1.3k
views
Microarray Data in R, Annotation of Transcript clusters
RStudio affy microarray
updated 4.1 years ago by 89k • written 4.1 years ago by • 0
1
vote
3
replies
2.5k
views
How to filter VCF by the variant allele depth of a specific sample
bcftools VCF
4.1 years ago by john_campbell1 • 0
0
votes
11
replies
2.7k
views
error in R
RNASeq
updated 4.1 years ago by 45k • written 4.1 years ago by ▴ 10
1
vote
1
reply
2.4k
views
PLINK Error: Too many distinct nonstandard chromosome/contig names.
PLINK
updated 4.1 years ago by 11k • written 4.1 years ago by ▴ 140
0
votes
0
replies
888
views
metascape or STRING
Metascape STRING
4.1 years ago by fionajcunningham • 0
1
vote
2
replies
1.8k
views
Issue with bed to bam conversion - sequence in bam headers
bam bed
updated 4.1 years ago by 153k • written 4.1 years ago by • 0
2
votes
5
replies
6.0k
views
How to get gseKEGG() to accept an input gene list?
clusterprofiler dose gene-enrichment-analysis R
updated 2.5 years ago by ▴ 30 • written 4.1 years ago by ▴ 20
16
votes
15
replies
16k
views
8 follow
BAM files compression
bam
updated 4.1 years ago by ▴ 230 • written 5.6 years ago by ▴ 750
0
votes
4
replies
1.6k
views
variant calling
mutect2
updated 4.1 years ago by ▴ 30 • written 4.2 years ago by • 0
0
votes
0
replies
613
views
rmaps fiel output
RBPs splicing rMATs rmaps
4.1 years ago by Larry • 0
0
votes
4
replies
1.6k
views
"Illegal instruction" error when I use the latest STARsolo to analysis 10X genomics data
statsolo 10x
updated 2.5 years ago by • 0 • written 4.1 years ago by ▴ 80
3
votes
4
replies
2.6k
views
clusterprofiler for comparing differentially expressed genes
clusterProfiler comparecluster
4.1 years ago by najibveto ▴ 130
0
votes
0
replies
702
views
pycoQC Report - Interval unit in output over time plot
QC pycoQC Nanopore
4.1 years ago by chrys ▴ 80
3
votes
2
replies
1.3k
views
How to retrieve total gene numbers per cluster
seurat R
updated 4.1 years ago by ★ 1.7k • written 4.1 years ago by ▴ 30
0
votes
0
replies
1.2k
views
Validation of WES pipeline using NIST7035 and NIST7086 of NA12878
using pipeline validation NA12878 WES data
4.1 years ago by smeeta • 0
2
votes
3
replies
2.9k
views
How to get GTF file of virus genome
genome gene assembly
updated 4.1 years ago by • 0 • written 5.2 years ago by ▴ 170
0
votes
0
replies
1.4k
views
Job: Computational Biologist
research biology nextgen mizzou computational
4.1 years ago by stinsons • 0
0
votes
1
reply
1.1k
views
Expression recursion level exceeded Error in Admixture using mac computer
admixture
4.1 years ago by alexis.diaz • 0
3
votes
2
replies
2.7k
views
Using 'expand' in snakemake target rule with constraints
snakemake glob_wildcards expand
4.1 years ago by cfos4698 ★ 1.1k
3
votes
1
reply
1.2k
views
Bioconductor package specific website
Bioconductor Rstats R
updated 4.1 years ago by ★ 1.2k • written 4.1 years ago by ★ 2.0k
0
votes
0
replies
687
views
Indel frequency analysis from CRISPR modification using sequencing data.
CRISPR Indel Cas9 frequency site cut
4.1 years ago by ms3389 • 0
121,832 results • Page 606 of 2437
Recent Votes
Motif analysis of DMRs (Differentially Methylated Regions) by HOMER
Comment: Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the
Answer: Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the
Answer: Split chromosome into smaller fragments to save memory when build xg and gcsa in
C: DiffBind error when calling dba.count
Answer: CBioPortal: What does Mutation type: Targeted_Region means?
Answer: CBioPortal: What does Mutation type: Targeted_Region means?
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Popular Question to 1769mkc ★ 1.3k
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Recent Replies
Answer: Criteria for choosing variants by benformatics 4.2k
The whole question seems very confusing as if there is a substantial knowledge gap. Calling variants in tumor-normal pairs is relatively…
Comment: How to fix "Please indicate the file directory in 'setting' file?" for MaxBin2? by GenoMax 153k
> Cannot run FragGeneScan. Please indicate the file directory in 'setting' file. Looks like you will need to add the. directory containing…
Comment: Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the by GenoMax 153k
@yokofakun Was trying to run parabricks using apptainer. Was able to get the docker image converted. I can start the container and run `pb…
Comment: How to fix "Please indicate the file directory in 'setting' file?" for MaxBin2? by Pallishree • 0
i have run this command (maxbin2_env) [m5@mks1 FASTQ]$ /data/sms/home/m5/.conda/envs/maxbin2_env/bin/run_MaxBin.pl \ ? -contig /…
Comment: Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the by Arup Ghosh 3.4k
The `--nv` flag for apptainer is there?
Comment: Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the by Arup Ghosh 3.4k
The GPUs have 24 GB memory each but only worked with the flag.
Comment: Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the by Pierre Lindenbaum 166k
it doesn't work with `--htvc-low-memory` (same error with 4.5.0-1 )
Comment: Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the by GenoMax 153k
`Parabrix` is not supported on multi-instance GPU's (MIG) so having that setting disabled is perfect.
Comment: Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the by GenoMax 153k
That option is indicated for using a 16GB GPU. Was that the case or even though you had a >16 GB GPU, this option was needed to fix the err…
Comment: Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the by Arup Ghosh 3.4k
I faced a similar issue with Parabricks and version 4.3.0; using `--htvc-low-memory` resolved the problem.
Comment: Parabricks : Number of GPUs requested (2) is more than number of GPUs (0) in the by Mensur Dlakic ★ 29k
Maybe this will help: https://stackoverflow.com/questions/67091056/gpu-allocation-in-slurm-gres-vs-gpus-per-task-and-mpirun-vs-srun
Comment: Split chromosome into smaller fragments to save memory when build xg and gcsa in by Jordan M Eizenga ▴ 750
GCSA2 indexing is fairly demanding on disk space, so that can happen. I would generally recommend having 1-2 TB of disk availability if you…
Comment: how to start by shelkmike ★ 1.7k
If you plan to become a professional bioinformatician, I don't recommend the approach suggested by Joe and Yura Grabovska (learning bioinfo…
Comment: vg input and output files by GenoMax 153k
Have you looked at this page: https://github.com/vgteam/vg/wiki/Basic-Operations There is a pipeline illustration on this page that shows …
Comment: Criteria for choosing variants by ATpoint 89k
To me knowledge, ensembl approach means that you run several tools and then run some sort of filtration and classification approach to deci…
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