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831
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Fully online, single modules/courses in Bioinformatics and Omics Data Analysis?
university omics online academic
updated 4.3 years ago by 45k • written 4.4 years ago by • 0
0
votes
3
replies
1.4k
views
Help! Master regulator prediction from DEGs in RNA-seq
GRN transcription rna-seq DEG transcriptomics
updated 4.4 years ago by ▴ 70 • written 4.4 years ago by • 0
0
votes
0
replies
2.0k
views
Bismark to MethylKit
methylkit bismark bsseq
4.4 years ago by Arindam Ghosh ▴ 550
1
vote
1
reply
1.0k
views
Compare protein functionality between species
Genetics Comparative Proteomics
updated 4.4 years ago by ★ 30k • written 4.4 years ago by • 0
0
votes
4
replies
1.6k
views
I'm having some problems when I calculated PRS by PRsice
PRsice PRsice-2 error
4.4 years ago by dong • 0
0
votes
1
reply
1.0k
views
How to use python to align 30 kb genome to another 30kb reference, repeat 10x times ?
Alignment reference-alignment python
updated 4.4 years ago by 48k • written 4.4 years ago by ▴ 10
0
votes
0
replies
617
views
Whole Proteome Alignment
divergence alignment proteome
4.4 years ago by sentionaut • 0
8
votes
15
replies
9.0k
views
6 follow
blastn error - NCBI C++ Exception
assembly blast alignment
updated 3.5 years ago by 16k • written 4.5 years ago by ▴ 1000
0
votes
0
replies
1.0k
views
Calculating net charge of a ligand.
amber ligand Charge
4.4 years ago by Ammar Danazumi ▴ 10
10
votes
7
replies
5.6k
views
Forum: Conceptual - Do I need to justify myself if I generate more than three replicates?
statistics conceptual
4.4 years ago by c_u ▴ 530
0
votes
1
reply
1.2k
views
Merging Bam Files with Rsamtools
mergeBam Rsamtools
updated 4.4 years ago by 45k • written 4.4 years ago by • 0
0
votes
0
replies
644
views
Chipseq allelic density plot for TSS region
Chip-Seq Allelic-Chipseq Deeptools
4.4 years ago by BISEP ▴ 10
0
votes
2
replies
846
views
Identical BLAST search query producing different results?
BLAST
4.4 years ago by Felixculpa • 0
1
vote
1
reply
1.2k
views
Trimming gene coding sequence for finding TFBS
tfbs transcription binding rna-seq
4.4 years ago by greyman ▴ 190
0
votes
2
replies
1.5k
views
subset of paired end reads from bam file or fastq file of different depth
depth ShortRead samtools read
4.4 years ago by rthapa ▴ 90
2
votes
3
replies
1.7k
views
Difference between fCDS and CDS
fCDS CDS
4.4 years ago by Prashant ▴ 10
0
votes
1
reply
3.9k
views
Editing Seurat object metadata
scRNA-seq Seurat snRNA-seq
updated 4.4 years ago by ★ 1.7k • written 4.4 years ago by ▴ 30
0
votes
1
reply
775
views
Suggestion on parsing multipe alignment in fasta format
mafft multiple msa sequence clustal
updated 4.4 years ago by 21k • written 4.4 years ago by ▴ 30
0
votes
1
reply
2.9k
views
Plink bim from bgen
bgen plink2 bgenie plink
4.4 years ago by meggo • 0
1
vote
1
reply
658
views
What is hg19_random
Hg19
updated 4.4 years ago by 166k • written 4.4 years ago by • 0
0
votes
1
reply
951
views
how to import multiple fastq files from NCBI without using fastq-dump?
curl wget multi-samples importing
updated 4.4 years ago by 154k • written 4.4 years ago by ▴ 140
0
votes
2
replies
1.2k
views
Any text mining tool?
text-mining meta-analysis
4.4 years ago by seta ★ 1.9k
8
votes
9
replies
4.3k
views
Extract reads overlapping a specific region in bam file
awk samtools
updated 3.5 years ago by ▴ 10 • written 4.4 years ago by ▴ 750
9
votes
3
replies
1.1k
views
How to use directories as index of a vector?
R
updated 4.4 years ago by 12k • written 4.4 years ago by ▴ 20
1
vote
1
reply
936
views
Multiple Entity Id for same file in GDC
GDC
updated 4.4 years ago by ★ 1.3k • written 4.4 years ago by • 0
0
votes
0
replies
741
views
News: RNA sequencing data with R/Bioconductor
R Bioconductor RNAseq
4.4 years ago by Physalia-courses ★ 2.6k
1
vote
3
replies
1.7k
views
trouble converting imputev2 files to vcf file
conversion vcf shapeit imputev2
updated 4.4 years ago by 45k • written 4.4 years ago by ▴ 40
7
votes
6
replies
4.9k
views
Optical duplicates?
duplicate optical
updated 3.6 years ago by ▴ 60 • written 4.4 years ago by ★ 1.2k
0
votes
3
replies
1.3k
views
Combining distance matricies between multiple aligned genes into final distance matrix
phylogeny distance alignment
4.4 years ago by robert.murphy ▴ 110
0
votes
1
reply
602
views
what is the difference between a protein GWAS and pQTL study? are they the same thing
GWAS pQTL
updated 4.4 years ago by 22k • written 4.4 years ago by • 0
0
votes
0
replies
713
views
AAI Matrix
R CompareM Matrix AAI
4.4 years ago by matthewcrossie • 0
0
votes
0
replies
899
views
Job: Full-Stack-Developer with knowledge of managing biological data
visualization biotech fullstack data python
4.4 years ago by D4office • 0
0
votes
0
replies
1.0k
views
GTDBTk - align step error in hmm file
align hmm GTDBTK
4.4 years ago by seok1213neo ▴ 40
0
votes
1
reply
694
views
Functional annotation of bacterial genes
prokaryotes bacteria annotation kegg
updated 4.4 years ago by 154k • written 4.4 years ago by ▴ 50
2
votes
4
replies
1.3k
views
how to find homology in DNA regios
coordinates homology sequences blast
4.4 years ago by Lila M ★ 1.3k
0
votes
3
replies
2.0k
views
Problem to convert genotypes to plink format from bcftools
vcf bcftools ped plink beagle
updated 2.5 years ago by ▴ 10 • written 4.4 years ago by ▴ 10
1
vote
3
replies
1.3k
views
Normalizing across multiple RNA-seq datasets
RNASeq normalization
updated 4.4 years ago by 22k • written 4.4 years ago by ▴ 240
2
votes
2
replies
1.4k
views
How to map metatranscriptomics reads to a given genome (unannotated genome assembly)?
mapping genome alignment metatranscriptomics
4.4 years ago by mrj ▴ 180
1
vote
4
replies
1.5k
views
Matching genes between two lists are return to txt file
Python BioPython
updated 2.6 years ago by 45k • written 4.4 years ago by • 0
0
votes
0
replies
1.7k
views
Job: Scientist/Sr. Scientist – Data Science (m/f/d)
Data-Integration Statistics
updated 2.3 years ago by 45k • written 4.4 years ago by ★ 2.7k
0
votes
1
reply
641
views
Trying to write something on r, it is written in strange font.
console R weird
updated 4.4 years ago by ★ 1.7k • written 4.4 years ago by • 0
3
votes
6
replies
5.0k
views
Statistics analysis of assembled genome from PacBio HiFi reads using Hifiasm
ccs gfa pacbio contigs hifiasm
updated 4.4 years ago by ★ 2.2k • written 4.4 years ago by ▴ 10
3
votes
1
reply
5.3k
views
Comparison of module expression across WGCNA networks
WGCNA Transcriptomics
updated 4.4 years ago by 89k • written 8.9 years ago by ▴ 30
2
votes
2
replies
4.2k
views
WGCNA cannot be done to compare two conditions?
WGCNA RNA-Seq rna-seq
updated 4.4 years ago by 89k • written 6.3 years ago by • 0
1
vote
0
replies
895
views
Job: Statistician needed for remote/freelance work $120ph
statistics
updated 2.3 years ago by 45k • written 4.4 years ago by ▴ 10
0
votes
0
replies
798
views
Where to find TCGA hg38 WXS coverage per sample
TCGA WXS coverage
4.4 years ago by rebeliscu ▴ 60
8
votes
12
replies
7.0k
views
is it .impute2 format equal to .gen format
imputation impute2 qctool
updated 4.4 years ago by ▴ 40 • written 8.2 years ago by ▴ 210
0
votes
0
replies
744
views
Considering aneuploidy, ploidy, and CNV when performing ABHet filtering on VCF files
Aneuploidy VCF Filtering CNV ABHet
4.4 years ago by Jackson • 0
0
votes
4
replies
1.3k
views
over 900 million bases in CCDS regions?
CCDS
updated 4.4 years ago by 45k • written 4.4 years ago by ▴ 10
0
votes
4
replies
1.2k
views
How to print coordinates in continuous manner
outfmt blast
4.4 years ago by K ▴ 10
121,991 results • Page 652 of 2440
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A: Trimmomatic Error: Unable to detect quality encoding
A: Trimmomatic Error: Unable to detect quality encoding
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Answer: TMM-Normalization
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Answer: SNP calling ONT sequenced files by cfos4698 ★ 1.2k
My personal preference is using [clair3][1]. I'm unsure if CLC didn't work because your compute resources are too limited, or if there are …
Comment: HIV NL4-3 transcriptome fasta by Ales ▴ 50
Hi, Wanted to update here that full transcriptome annotations for thousands of hiv genomes (including NL4-3) are now available at https://…
Answer: HIV NL4-3 transcriptome fasta by Ales ▴ 50
You can get full transcriptome annotation for the NL4-3 genomes: https://ccb.jhu.edu/HIV_Atlas/11676/AF324493.2 . Note the accession ID tho…
Answer: Doubt on docking by Mensur Dlakic ★ 30k
I think you are wrongly assuming that we can help you with this without knowing what is the protein of interest. A general answer is that …
Answer: Difficulty running FoldX in linux by Mensur Dlakic ★ 30k
The post looks much better now, so you did something. The preview here works fine. It simply can't be that the preview for your original po…
Comment: GUI commercial software for 10x single cell gene expression analysis by GenoMax 154k
Black box software has its cons but in instances like what OP needs that may be the only viable option. Their use limits reproducibility as…
Comment: downloading raw bam files from pacbio sequencer by GenoMax 154k
Have you checked : https://www.pacb.com/connect/datasets/
Comment: TMM-Normalization by kalavattam ▴ 380
No, but a modified version of TMM does: “GeTMM.” See the paper [here](https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-0…
Comment: Difficulty running FoldX in linux by strayeroliver • 0
Responding to your answer. - I spent a lot of time formatting it just right, using the ``` methodology you mentioned. It looks very good o…
Comment: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions by Phil Ewels ★ 1.5k
Found the docs: https://www.nextflow.io/docs/latest/process.html#multiple-input-files | Arity | Name pattern | Staged file names | |---|--…
Comment: Dorado in PowerShell on Windows by jared.andrews07 ★ 19k
No more than running it on native Linux (as that's what WSL is at this point).
Answer: SNP calling ONT sequenced files by colindaven 8.0k
The quality of (modern, SUP basecalled, but certainly not fast basecalled) ONT sequences should be fine, especially for bacterial SNP call…
Comment: SNP calling ONT sequenced files by GenoMax 154k
What is the median length of raw reads and how many do you have? Has the data been basecalled with "high" or "super" accuracy? > I have …
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere by GenoMax 154k
This question is about simulating reads and not read mapping.
Comment: GUI commercial software for 10x single cell gene expression analysis by yura.grabovska ▴ 830
I have fun memories of month-long discussions with Illumina support about their GenomeStudio methylation module asking them to provide info…
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