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121,832 results • Page 411 of 2437
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1
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4
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1.3k
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How to convert from csv to ped and map files?
plink
updated 3.2 years ago by 11k • written 3.2 years ago by ▴ 10
1
vote
0
replies
927
views
Herald: The Biostar Herald for Monday, June 20, 2022
herald
3.2 years ago by Biostar 3.6k
0
votes
3
replies
1.1k
views
convert BGI stLFR reads to 10x format
10x reads stLFR
updated 3.2 years ago by 153k • written 3.2 years ago by ▴ 10
3
votes
2
replies
912
views
Best Pipeline for De novo transcriptome SC-RNAseq
scRNAseq
updated 2.7 years ago by 45k • written 3.2 years ago by ▴ 10
1
vote
1
reply
836
views
Extract inherited variants from VCF files in multiplex families
vcf awk genetics
updated 3.2 years ago by 166k • written 3.2 years ago by • 0
0
votes
0
replies
490
views
Comparing FPKM/RPKM between two different datasets
FPKM comparison
3.2 years ago by Aleksandar • 0
0
votes
0
replies
1.1k
views
ValueError: The number of observations cannot be determined on an empty distance matrix.
CARD
3.2 years ago by Neel ▴ 20
0
votes
5
replies
5.4k
views
Create an Rstudio environment with the latest R version
R environment Rstudio conda
updated 3.2 years ago by 56k • written 3.2 years ago by ▴ 20
5
votes
3
replies
978
views
Strange alignments results
coverage mem bwa bowtie2 alignment
updated 3.2 years ago by 89k • written 3.2 years ago by ▴ 80
3
votes
6
replies
1.4k
views
BAM cannot be indexed without setting a fileSource for record Error while trying to generate an index file with htsjdk
samtools htsjdk java bam
updated 2.2 years ago by 45k • written 3.2 years ago by • 0
0
votes
1
reply
816
views
Identification of conserved and varaible regions on 16s rRNA sequences
16s illumina sequencing NGS
updated 3.2 years ago by ▴ 420 • written 3.2 years ago by • 0
0
votes
0
replies
376
views
CHECKING PROPERIONAL OF SAMPLE IN GWAS CATALOGY
Catology GWAS
3.2 years ago by itsmesmb • 0
1
vote
3
replies
3.0k
views
Installation error - Seurat/SeuratObject/rgeos - in server-based RStudio
Seurat RStudio
updated 3.2 years ago by 89k • written 3.2 years ago by • 0
0
votes
0
replies
1.6k
views
MulticoreParam() not supported on Windows, use SnowParam()
r xcell rna-seq bioconductor tcga
3.2 years ago by amirnavidinia2014 ▴ 10
1
vote
2
replies
1.5k
views
How to integrate multi omics data in cytoscape
cytoscape protein-protein interaction network
3.2 years ago by PK ▴ 130
8
votes
8
replies
7.5k
views
8 follow
Tophat2 "error running tophat_reports"
tophat RNA-Seq Tophat2
updated 3.2 years ago by • 0 • written 9.4 years ago by ▴ 20
2
votes
3
replies
1.2k
views
Is Cel-seq & Cel-seq2 protocols are with Strand specific library .If so should i use Stranded 'yes' option in HT-Seq-Count
Library Cel-seq HT-Seq-Count Stranded
3.2 years ago by Parichitran ▴ 10
2
votes
2
replies
856
views
I need to perform a sum with values from several outputs of a program
loop
3.2 years ago by pavelasquezv ▴ 50
1
vote
6
replies
4.4k
views
CNVnator histogram error
cnvnator
updated 3.1 years ago by 45k • written 9.8 years ago by • 0
0
votes
2
replies
1.3k
views
0 enriched terms found (Gene Ontology Analysis)
ClusterProfiler GeneOntology
3.2 years ago by tsomakiank ▴ 50
1
vote
1
reply
909
views
Error while running CPC2
ORFfinder RNAseq CPC2 Fastq
updated 3.2 years ago by ★ 29k • written 3.2 years ago by ▴ 60
1
vote
3
replies
1.0k
views
How to get information from the UHGG website by python
python UHGG
updated 3.2 years ago by 45k • written 3.2 years ago by • 0
0
votes
1
reply
871
views
How can I convert mouse probe ID's from GEO (TC0500001894.mm.2) in this format - to a readble gene symbol?
ID Probe GEO2R Mouse GEO
updated 3.2 years ago by ★ 1.9k • written 3.2 years ago by • 0
2
votes
5
replies
1.3k
views
how can we determin the length of first sequences in genome
genomic sequence
3.2 years ago by ikramb450 • 0
0
votes
0
replies
899
views
Variation in level 5 LINCS gene perturbation Tx data and best practice to process
cmap L1000 perturbation transcriptomics LINCS
3.2 years ago by Yep ▴ 20
0
votes
3
replies
1.1k
views
Plotting MAF summary
plotmafSummary MAF
3.2 years ago by Negatyvna • 0
2
votes
3
replies
1.2k
views
tophat2 -o tophat_fusion -p 15 --fusion-search --keep-fasta-order --bowtie1 --no-coverage-search hg19_bowtie1_index read_1.fastq read_2.fastq
circRNAs Tophat2 ciriexplorer2
updated 3.2 years ago by 166k • written 3.2 years ago by • 0
18
votes
15
replies
2.8k
views
7 follow
how many sequences are in genome file
genomic sequence
updated 3.2 years ago by 9.0k • written 3.2 years ago by • 0
0
votes
1
reply
792
views
multiple Sequence Alignment tools for cis-element
MSA cis-element
updated 3.2 years ago by 15k • written 3.2 years ago by ▴ 30
6
votes
15
replies
2.7k
views
The Best Cloud Solution For Genomics
cloud data-sharing genomics workflow
updated 3.2 years ago by 45k • written 3.2 years ago by ▴ 50
0
votes
1
reply
790
views
'gcmr' package installation issue
package installing gcmr not R
updated 3.2 years ago by 89k • written 3.2 years ago by • 0
9
votes
14
replies
3.2k
views
how can we count that how many alignments contains a deletion?please guide me
deletion alginment
3.2 years ago by ikramb450 • 0
3
votes
1
reply
596
views
Colon cancer and single nucleotide variants
SNP CRC
updated 3.2 years ago by ▴ 430 • written 3.2 years ago by • 0
2
votes
4
replies
4.4k
views
Updating rsids from one version of dbSNP to another
dbsnp rsids
updated 3.2 years ago by • 0 • written 7.2 years ago by ▴ 190
0
votes
2
replies
1.2k
views
Updating old RsID's to new RsID's
rsid genome
updated 3.2 years ago by • 0 • written 4.3 years ago by ▴ 10
2
votes
5
replies
2.8k
views
Error: All columns in a tibble must be 1d or 2d objects:
RNA-Seq R
updated 3.2 years ago by ▴ 30 • written 5.6 years ago by ▴ 250
0
votes
0
replies
635
views
GREIN tool
DEG GREIN
updated 2.0 years ago by 45k • written 3.2 years ago by • 0
1
vote
4
replies
1.2k
views
meaning of genotype
vcf genotype
3.2 years ago by arwa.ahmad95 • 0
0
votes
4
replies
1.4k
views
Suggestion of Cancer Databases
ccle database cancer
3.2 years ago by UGUR • 0
0
votes
0
replies
552
views
How to control number of cores GATK can use?
gatk
3.2 years ago by optimistsso4co3 ▴ 140
3
votes
2
replies
1.1k
views
Mauve - bacterial genome viewer?
Genome Software
3.2 years ago by sunnykevin97 ▴ 1000
0
votes
1
reply
1.9k
views
Curl failure in receiving data for downloading gene sets from KEGG
pathfindR KEGG gage geneset
3.2 years ago by Deepblue ▴ 10
1
vote
3
replies
2.8k
views
how to run CD-Search with python or biopython
Biopython
updated 3.2 years ago by • 0 • written 5.3 years ago by ▴ 10
4
votes
12
replies
3.0k
views
Hi everyone. I want to know how to analysis genes data by using "Welch t test, Wilcoxon Mann Whitney test(WMW) and Significance of Analysis Microarra…
Genes parametric data-analysis
updated 3.2 years ago by 45k • written 3.2 years ago by • 0
0
votes
1
reply
791
views
Big Difference cell estimation between emptydrops and cell ranger?
cellranger snRNASeq emptydrops
updated 12 months ago by • 0 • written 3.2 years ago by ▴ 610
4
votes
4
replies
2.1k
views
problem with RUVSeq and SVA
rnaseq
3.2 years ago by Will Yam ▴ 30
0
votes
0
replies
803
views
Megahit assembly
Megahit
3.2 years ago by bala • 0
3
votes
0
replies
890
views
Job: PhD position in evolutionary genomics
evolution genomics transcriptome
updated 2.6 years ago by 45k • written 3.2 years ago by ▴ 30
11
votes
10
replies
13k
views
6 follow
How to change color of rownames display in pheatmap
R pheatmap
updated 3.0 years ago by ★ 4.4k • written 4.7 years ago by ▴ 70
0
votes
0
replies
446
views
Ensemlbacteria ftp file download
rnaseq hisat2 ensemblbacteria
3.2 years ago by Dhananjai • 0
121,832 results • Page 411 of 2437
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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 graeme.thorn ▴ 110
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Recent Replies
Answer: CDS prediction for newly assembled transcripts by Ales • 0
We have recently developed a dedicated method [ORFanage][1] to address this specific issue in studies which already have detailed protein r…
Answer: Gene feature information missing in Stringtie merged assembly by Ales • 0
We have also recently published a dedicated by-reference ORF assignment algorithm ([ORFanage][1]) which is designed largely to perform CDS …
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: 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 …
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