Limit : all time
all time today this week this month this year
121,981 results • Page 639 of 2440
Sort: Rank
Rank Views Votes Replies
0
votes
0
replies
1.0k
views
high resolution deconvolution problem
cibersort deconvolution rna-seq
4.3 years ago by demoraesdiogo2017 ▴ 120
2
votes
2
replies
1.4k
views
Can I carrying out a WGCNA analysis with multiple traits?
WGCNA
4.3 years ago by Lalaland ▴ 40
4
votes
10
replies
3.4k
views
Sorting of a bam file takes toooo long time
linux bam
updated 2.5 years ago by 45k • written 4.3 years ago by ▴ 30
1
vote
2
replies
1.2k
views
BLASTP local vs website
blastp
4.3 years ago by timothy.kirkwood ▴ 140
0
votes
0
replies
1.6k
views
How to plot rarefaction curves in R using Vegan?
gene richness rarefaction R
4.3 years ago by anikcropscience ▴ 270
0
votes
1
reply
1.6k
views
Can BOLT-LMM_v2.3.2 handle BGEN v3 format data released by UK biobank?
UK Biobank BGEN BOLT-LMM gene genotype
updated 4.3 years ago by • 0 • written 6.2 years ago by ▴ 10
0
votes
1
reply
1.8k
views
Forum: Basic beginner bioinformatics for biochemistry for university first year students
books course
updated 4.3 years ago by 12k • written 4.3 years ago by • 0
0
votes
5
replies
2.0k
views
Comparing two bai files
BAM BAI
updated 4.3 years ago by 15k • written 4.3 years ago by ▴ 90
0
votes
0
replies
739
views
How to print the best matching hit while making a BLAST search? / BioPython
biopython blast best_hit_overhang max_hpsp hit
4.3 years ago by sezer.sevin • 0
4
votes
3
replies
4.1k
views
How do I count the real total reads from a fastq file?
NGS Fastq End Paired Sequencing
updated 3.5 years ago by ▴ 110 • written 4.3 years ago by ▴ 10
1
vote
7
replies
2.5k
views
Basic annotation of refseq bacterial genomes
annotation bacteria
4.3 years ago by biobiu ▴ 150
2
votes
4
replies
2.0k
views
Subsampling reads
metagenome metagenomics microbial
4.3 years ago by amy ▴ 20
5
votes
4
replies
3.9k
views
Difference between Meta'omics and Multi'omics
Omics
updated 4.3 years ago by ▴ 180 • written 4.3 years ago by ▴ 250
0
votes
0
replies
888
views
trmap alternative for gffcompare?
GffCompare Novel-Transcripts StringTie RNA-Seq
4.3 years ago by SKY ▴ 60
1
vote
2
replies
2.1k
views
How to extract subset of protein structure (PDB format) file based on a subsequence of protein
protein pdb python r
updated 4.3 years ago by ▴ 390 • written 4.3 years ago by ▴ 380
4
votes
1
reply
3.2k
views
Does HaploView perform phasing?
HaploView Phasing PHASE fastPHASE Haplotypes
updated 4.3 years ago by ▴ 20 • written 8.6 years ago by ▴ 150
0
votes
0
replies
940
views
Novel transcript class code GffCompare?
Novel-Transcripts GffCompare RNA-Seq
4.3 years ago by SKY ▴ 60
1
vote
2
replies
3.3k
views
Spatial transcriptomics data
seurat scanpy no-visium .h5 spatial
4.3 years ago by lsudupe ▴ 20
4
votes
4
replies
7.2k
views
Installing samtools version 1.12
samtools
updated 4.3 years ago by 105k • written 4.3 years ago by ▴ 90
0
votes
0
replies
841
views
how to install non-condo dependency and add it to .yaml env file?
snakemake
4.3 years ago by AnnaS • 0
0
votes
0
replies
704
views
tRNA fragment
RNA-seq small
4.3 years ago by 972050141 • 0
0
votes
0
replies
652
views
Is there a simple script to identify plasmid Inc or Rep type given its DNA sequence?
inc rep plasmid
4.3 years ago by crisstyl ▴ 10
1
vote
1
reply
1.2k
views
Is there is a way to know that the sra data I'm interested in has a bad fastqc from sra database on ncbi before downloading it or before making fastq…
fastq fasta SRA
updated 2.6 years ago by 45k • written 4.3 years ago by ▴ 20
16
votes
1
reply
4.4k
views
Tutorial: PCR Primer or Primer+Probe design
pcr probe rt-pcr qpcr primer
updated 4.3 years ago by ★ 19k • written 4.3 years ago by 89k
1
vote
1
reply
1.2k
views
Lowly undergrad has trouble finding good primers for Professor!
intron primerblast primerdesign ncbi exon
updated 4.3 years ago by 89k • written 4.3 years ago by • 0
0
votes
0
replies
908
views
How to change various SNP identifiers into rsID in Plink.
Chromosome SNP position Plink rsid
4.3 years ago by geno89 ▴ 20
1
vote
1
reply
940
views
Normalize RiboTag samples to input before differential expression with DESeq2
RiboTag DESeq2 RNA-Seq Differential Expression Analysis
updated 3.7 years ago by • 0 • written 4.3 years ago by ▴ 10
0
votes
3
replies
1.9k
views
Unable to extract country name from genbank file
Genbank data extraction
updated 4.3 years ago by ★ 3.9k • written 4.3 years ago by • 0
0
votes
2
replies
1.2k
views
Extraction of specific sequences from a FASTA file
Genomics
4.3 years ago by aranyak111 • 0
9
votes
7
replies
12k
views
6 follow
Forum: When applying to a PhD program in Harvard or MIT, how many publications are recommended?
GradSchool Grad Harvard School Application
updated 4.1 years ago by 45k • written 4.3 years ago by • 0
0
votes
0
replies
569
views
How can I upload pan-genome database data to Neo4j?
pantools pan-genome Neo4J
4.3 years ago by vyacheslavshumbar • 0
0
votes
4
replies
1.4k
views
How to download the final reads of SRA data from NCBI using fastq-dumb
fastq fasta SRA
updated 2.6 years ago by 45k • written 4.3 years ago by ▴ 20
1
vote
3
replies
3.1k
views
Download and install StringTie
StringTie RNA-Seq
updated 4.3 years ago by 154k • written 4.3 years ago by ▴ 60
0
votes
0
replies
608
views
Gene ontology analysis on viral proteins
gene go ontology
4.3 years ago by Chvatil ▴ 140
0
votes
0
replies
457
views
Can anyone suggest me how to perform recombination analysis using RDP4 software
RDP4
4.3 years ago by tilakvallabhaneni • 0
0
votes
1
reply
1.1k
views
Extract data from GTF file
gtf java
updated 4.3 years ago by 45k • written 4.3 years ago by • 0
3
votes
4
replies
1.4k
views
Pair-End Sequencing Algorithm Confusion (Illumina)
Sequencing
updated 4.3 years ago by 15k • written 4.3 years ago by ▴ 110
0
votes
1
reply
944
views
How does Control freec compute for the X and Y chromosomes
CNC freec Control variation Copy
updated 4.3 years ago by 89k • written 4.3 years ago by • 0
3
votes
2
replies
1.6k
views
Is the number of spots in SRA equal to the number of reads
fastq fasta SRA
updated 2.6 years ago by 45k • written 4.3 years ago by ▴ 20
0
votes
3
replies
1.2k
views
Can you lose unmapped reads in BAM file?
unmapped reads BAM
updated 4.3 years ago by ▴ 160 • written 4.3 years ago by • 0
2
votes
2
replies
1.3k
views
Example of simple repository using htslib API to read in .bcf
htslib
4.3 years ago by 4galaxy77 2.9k
0
votes
3
replies
5.6k
views
Can someone suggest the tool to Calculate Tumor Mutation Burden from VCF file
VCF tumor-mutational-burden R TMB
updated 2.3 years ago by 45k • written 6.9 years ago by • 0
10
votes
6
replies
5.3k
views
Limma: Extracting results when the global option of the decideTests is used
R limma
updated 3.2 years ago by ★ 1.3k • written 4.5 years ago by ▴ 130
2
votes
5
replies
1.7k
views
MERLIN: skipped due to megabytes problem
software error SNP snp
updated 4.3 years ago by ▴ 10 • written 4.7 years ago by • 0
1
vote
4
replies
2.3k
views
problem with plotheatmap colors
colors deeptools plotheatmap
updated 4.3 years ago by 45k • written 4.3 years ago by • 0
0
votes
3
replies
1.2k
views
Very low number of micro RNA reads
Genomics
updated 4.3 years ago by 23k • written 4.3 years ago by • 0
0
votes
3
replies
1.3k
views
CD45R isoforms in RNA-seq
RNAseq
4.3 years ago by dioscorea.bulbifera ▴ 10
4
votes
2
replies
1.2k
views
How to measure the similarity of operons from two species?
operon similarity bacteria
updated 4.3 years ago by ▴ 30 • written 5.5 years ago by ▴ 180
0
votes
2
replies
1.3k
views
Subset gff with non-unique seqid
gff
4.3 years ago by hazirliver ▴ 10
4
votes
6
replies
2.7k
views
python importing featureCounts to automate multiple files
featureCounts python
updated 4.3 years ago by 45k • written 4.3 years ago by • 0
121,981 results • Page 639 of 2440
Recent Votes
Is this an appropriate command for estimating contaminatin in a germline WGS sample using GATK?
Answer: Dorado in PowerShell on Windows
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Comment: When to merge RNA-seq files with multiple sequencing lanes
Answer: When to merge RNA-seq files with multiple sequencing lanes
Answer: Deeptools PlotProfile
Comment: GUI commercial software for 10x single cell gene expression analysis
Recent Locations • All
Belgium, 5 minutes ago
United States, 7 minutes ago
USA, 8 minutes ago
United Kingdom, 9 minutes ago
Chile, 32 minutes ago
London, United Kingdom, 39 minutes ago
Bologna, 45 minutes ago
Recent Awards • All
Popular Question to Ibrahim Tanyalcin ★ 1.2k
Scholar to DdogBoss ▴ 20
Popular Question to Info-rggs ▴ 20
Popular Question to sbissi102 ▴ 10
Popular Question to AellSidious • 0
Teacher to LChart 5.1k
Popular Question to Apprentice ▴ 190
Recent Replies
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 (…
Comment: Dorado in PowerShell on Windows by sbissi102 ▴ 10
Yes, I found all the barcodes, but could working on WSL affect the basecalling results?
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions by DdogBoss ▴ 20
Since I was running in stub-run mode, the solution was to make unique names for the FASTQC process like this: touch ${sample}_${rea…
Answer: GUI commercial software for 10x single cell gene expression analysis by Nicole • 0
Many researchers use the CLC Genomics Workbench and Ingenuity Pathway Analysis. CLC can be used to do secondary analysis for your dataset a…
Comment: Diffbind or DESEQ2 Chipseq data by Irene • 0
For example, in this image, the red area represents the differentially acetylated region returned by DiffBind. The green area is a promoter…
Comment: GUI commercial software for 10x single cell gene expression analysis by GenoMax 154k
Interesting pricing model : https://www.nygen.io/pricing Depending on user needs could be used (or certainly tested) for free. And this is …
Answer: Dorado in PowerShell on Windows by GenoMax 154k
> yet I received 96 fastq files in demux_out that corresponded to the 96 barcodes. Additionally, I'm unsure if I should re-trim the fastq f…
Comment: Dorado in PowerShell on Windows by jared.andrews07 ★ 19k
If you're using WSL, PowerShell has nothing to do with this. It also sounds like a better question for your sequencing facility/provider ra…
Answer: GUI commercial software for 10x single cell gene expression analysis by Arup Ghosh 3.4k
Except for GSEA, the app from Nygen can perform most of the analysis using a tool similar to Scanpy. Docs: https://www.nygen.io/knowledge-…
Comment: Quantification using salmon in alignment-based mode after minimap2 run by Rob 7.1k
Hi Assa, Unless you have an additional use for the intermediate BAM file, I would recommend the read-based quantification mode. It is s…
Comment: GUI commercial software for 10x single cell gene expression analysis by GenoMax 154k
> Single-cell analysis is a complex topic and it's easy to make wonky conclusions from wonky analysis. Let us set aside a discussion of op…
Comment: How much coverage is needed for high-quality phylogenetic and admixture analyses by colindaven 8.0k
How much short read coverage do other studies have which you want to replicate? Are those studies using whole genomes creating using long r…
Comment: GUI commercial software for 10x single cell gene expression analysis by firestar ★ 1.7k
They have 10X cellranger output (ie; counts). They want to perform the standard sort of Seurat/Scanpy analyses: QC, filtering, integration,…
Traffic: 3550 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6