Limit : this year
all time today this week this month this year
1,000 results • Page 3 of 20
Sort: Votes
Rank Views Votes Replies
4
votes
8
replies
1.8k
views
Error while running nf-core/rnaseq pipeline
nf-core RNA-seq
11 months ago by eesha28112001 • 0
4
votes
6
replies
2.1k
views
Single nucleotide Polymorphism (SNP)
SNP
updated 10 months ago by 43k • written 9.0 years ago by ▴ 10
4
votes
11
replies
646
views
Remove X in row name with only number
GSVA
updated 11 weeks ago by 43k • written 11 weeks ago by ▴ 260
4
votes
11
replies
1.6k
views
Check Strandedness
Check_Strandedness how_are_we_stranded_here leafcutter bash
updated 6 months ago by 20k • written 8 months ago by • 0
4
votes
9
replies
2.6k
views
Blast+ remote database names
blast remote databases Blastplus
updated 9 months ago by 141k • written 2.3 years ago by • 0
4
votes
9
replies
1.2k
views
Snakemake issue with wrappers
Python Snakemake
5 months ago by Begonia_pavonina ▴ 150
4
votes
3
replies
395
views
Single cell analysis of Cancer
cancer single-cell RNA-seq
updated 10 weeks ago by 141k • written 10 weeks ago by ▴ 20
4
votes
4
replies
610
views
I cannot install anaconda on ubuntu 22.04
ubuntu anaconda Conda
updated 8 months ago by 43k • written 8 months ago by ▴ 10
4
votes
7
replies
563
views
DESeq2 Multifactor Design
RNA-seq DESeq2
updated 15 days ago by 43k • written 16 days ago by ▴ 20
4
votes
3
replies
313
views
Should you remove PCR duplicates for kmer counting?
kmer dedup duplicates
updated 11 weeks ago by 4.6k • written 11 weeks ago by ▴ 30
4
votes
8
replies
2.0k
views
How to extract promoter sequences from a plant draft genome?
promoter genome
updated 11 months ago by 43k • written 4.6 years ago by ▴ 120
4
votes
2
replies
632
views
Visualization package for Maf Files using Python
Python maftools Visualization MAF
updated 6 months ago by ★ 1.5k • written 6 months ago by ▴ 100
4
votes
16
replies
1.8k
views
How to subset large BAM files specifically/ extract specific subsets?
bamtools RNAseq samtools BAM
updated 9 weeks ago by 43k • written 7 months ago by • 0
4
votes
2
replies
2.2k
views
Bfast Match Paired End Reads - Reports Half Total Number Of Reads
paired-end alignment next-gen
updated 10 months ago by 43k • written 11.3 years ago by ▴ 50
4
votes
4
replies
497
views
Correlation for ATAC-Seq and Chip-Seq
RNA-Seq Chip-Seq ATAC-Seq
8 weeks ago by qudrat.nii ▴ 10
4
votes
16
replies
977
views
hisat2 location does not exist
hisat2
updated 8 weeks ago by 43k • written 9 weeks ago by • 0
4
votes
13
replies
1.0k
views
Mapping FASTQ files of scRNA-seq to reference genome
star EBI cellranger scRNA-seq SRA
updated 3 months ago by 43k • written 3 months ago by ▴ 20
4
votes
5
replies
1.0k
views
VEP run with --af_gnomadg refuses to provide allele frequencies for extremely rare variants
vep gnomad
updated 8 months ago by ▴ 60 • written 8 months ago by 22k
4
votes
6
replies
805
views
how to plot SV(structural variants) from many assemblies of a given locus
SV
11 months ago by natalev ▴ 20
4
votes
6
replies
341
views
Protein loops
protein Loop
6 weeks ago by Curious ▴ 10
4
votes
6
replies
1.1k
views
Pre-processing for single cell RNAseq: Hard thresholds, data (cluster)-driven or both?
scRNA-seq
updated 6 months ago by ▴ 120 • written 7 months ago by ▴ 130
4
votes
7
replies
1.0k
views
Statistical test to compare data across timepoints
Statistics
updated 6 months ago by 4.5k • written 6 months ago by ▴ 20
4
votes
6
replies
1.0k
views
Python script to automatically read in, name output files & parse R1 & R2 fastq.gz files when given an input directory with raw data files
python fastq
9 months ago by eorr ▴ 30
4
votes
8
replies
610
views
GCP Snakemake
snakemake GCP
updated 3 months ago by 43k • written 3 months ago by ▴ 10
4
votes
7
replies
1.4k
views
.bed files from sequencing platform not containing intervals of "alt", "random" haplotypes. How do I perform coverage and haplotype caller?
exome .bed haplotypes HG38 coverage
updated 9 months ago by 141k • written 9 months ago by • 0
4
votes
1
reply
1.7k
views
How does FindNeighbors() and FindClusters() related and work?
seurat clustering
updated 8 months ago by ★ 2.4k • written 8 months ago by ▴ 120
4
votes
7
replies
798
views
Help with weighted nearest neighbor analysis
seurat single-cell
8 months ago by Chris ▴ 260
4
votes
11
replies
1.8k
views
PCA WITH PLINK
PLINK
updated 8 months ago by 87k • written 8 months ago by • 0
4
votes
6
replies
1.8k
views
Failure in installing the ggtree, enrichplot, and ggtree (Bioconductor packages )
Bioconductor
updated 10 months ago by 141k • written 10 months ago by • 0
4
votes
4
replies
648
views
Feedback on mouse brain scRNA-seq quality control
mouse brain singe-cell scRNAseq quality-control
8 months ago by nshenoy ▴ 50
4
votes
7
replies
819
views
SNP IDs
SNP
5 months ago by kl ▴ 10
4
votes
6
replies
883
views
Hisat2 index and alignment question
ubuntu rna-seq index hisat2
updated 7 months ago by 100k • written 7 months ago by • 0
4
votes
8
replies
3.5k
views
How to reduce the number of SNPs for the Lositan software
Lositan SNP
updated 10 months ago by 43k • written 9.5 years ago by • 0
4
votes
3
replies
729
views
Why is there a big difference between the outputs of `geneBody_coverage` of `RSeQC` when using different bed files?
RSeQC
11 months ago by Dan ▴ 180
4
votes
7
replies
2.4k
views
Batch effects vs biological variables
Batch-effect DESeq2 combat_seq
updated 20 days ago by 43k • written 3.7 years ago by ▴ 20
4
votes
6
replies
636
views
Unexpected separation of RNA-seq samples on PCA plot
depletion PCA rRNA plot RNA-seq
5 months ago by Tihana ▴ 10
4
votes
4
replies
608
views
Request for a linkage analysis tutorial
linkage
updated 8 months ago by 141k • written 8 months ago by ★ 2.9k
4
votes
6
replies
1.2k
views
Transcript quantification
rna-seq transcriptome SRA
updated 10 months ago by 82k • written 10 months ago by • 0
4
votes
8
replies
1.9k
views
Hello, I have differential ATAC-seq from control and diseased cells (H3K27ac mark as chromatin mark) and wondering how to call enhancers using ROSE …
super-enhancers Enhancers
updated 12 weeks ago by ★ 16k • written 3 months ago by • 0
4
votes
6
replies
938
views
How to pass from DNA to AA fasta
genetics
updated 11 months ago by ★ 2.4k • written 11 months ago by • 0
4
votes
14
replies
2.7k
views
Is it possible to annotate single genes by snpeff
snp vcf
updated 10 months ago by 43k • written 6.7 years ago by ▴ 70
4
votes
12
replies
7.8k
views
6 follow
BWA error: no ID within the read group line
bwa readgroups RG parallel
updated 11 weeks ago by ▴ 10 • written 3.4 years ago by ▴ 60
4
votes
14
replies
1.1k
views
remove white space in fastq file
fastq
updated 4 months ago by 141k • written 4 months ago by • 0
4
votes
5
replies
1.2k
views
tranfering sam file easy and fast way
SAM RNA-seq hisat2
updated 8 months ago by 43k • written 2.3 years ago by • 0
4
votes
13
replies
881
views
RNAseq of primary tumor and metastases in two different organ
metastases RNA-seq DEG R
updated 11 days ago by ★ 1.7k • written 17 days ago by • 0
4
votes
3
replies
758
views
Creating custom GTF file for use with Cellranger with barcode sequences
Cellranger
8 months ago by stefano.iantorno ▴ 70
4
votes
5
replies
788
views
Does adding reads cause batch effects?
kallisto RNAseq
10 months ago by bioinfo ▴ 150
4
votes
4
replies
367
views
Average expression of a sample in single-cell data
single-cell rna-seq
26 days ago by newuser2024 • 0
4
votes
7
replies
2.2k
views
About normalization of the datasets from Harmonized TCGA data
protein transcript normalisation
updated 12 weeks ago by 43k • written 21 months ago by ▴ 10
4
votes
5
replies
539
views
Which refseq_protein db to choose for zingiberaceae
local blastp blast
updated 8 months ago by 141k • written 8 months ago by • 0
1,000 results • Page 3 of 20
Recent Votes
Comment: NGS forensics: how to know if data is fabricated
A: Hard time trying to calculate Allele Frequency and DP from Platypus
Answer: NGS forensics: how to know if data is fabricated
Answer: NGS forensics: how to know if data is fabricated
Comment: NGS forensics: how to know if data is fabricated
Answer: NGS forensics: how to know if data is fabricated
Comment: NGS forensics: how to know if data is fabricated
Recent Locations • All
Palau, 2 minutes ago
Mexico, 7 minutes ago
Guam, 7 minutes ago
South Korea, 9 minutes ago
China, 11 minutes ago
South Korea, 31 minutes ago
Whitefish, MT, 39 minutes ago
Recent Awards • All
Teacher to Jeremy Leipzig 22k
Popular Question to AshleeThomson ▴ 80
Popular Question to michael.flower.14 ▴ 180
Popular Question to Nitin Narwade ★ 1.6k
Popular Question to carlopecoraro2 ★ 2.5k
Popular Question to rj.rezwan • 0
Popular Question to husensofteng ▴ 410
Recent Replies
Answer: Differential Expression using Isoseq-supplemented reference transcriptome by Gordon Smyth ★ 7.0k
> What is the best method to test for differential abundance at the isoform level? Salmon returns TPM values instead of the counts which Li…
Answer: Finding batch and outlayers by Tigran • 0
![enter image description here][1] [1]: /media/images/aa60b9ef-b08c-4093-9f0d-fb656a5c
Comment: NGS forensics: how to know if data is fabricated by benformatics 3.9k
Can you post an IGV screenshot of what this looks like?
Comment: NGS forensics: how to know if data is fabricated by benformatics 3.9k
Yeah some of the Illumina machines pre-trim adapters (not sure if this is still the standard). I've also definitely also seen quality-trimm…
Comment: PDB related issue by noodle ▴ 530
You can typically find much more useful info in the cif file, for example what you've found is called '_atom_site.pdbx_PDB_ins_code ' and d…
Comment: PDB related issue by Mensur Dlakic ★ 27k
The best way to find out is to read the original paper. My guess is that the residue has been crystallized in alternative conformations, wh…
Answer: NGS forensics: how to know if data is fabricated by Mensur Dlakic ★ 27k
I share the opinion by @philippbayer I have seen enough questionable things in life and in science to keep me permanently jaded, but there…
Comment: How many reads for WGS Sequencing? by Mensur Dlakic ★ 27k
I downloaded the data in two files from the link you provided. With this command: megahit -1 ERR072246_1.fastq.gz -2 ERR072246_2.fastq…
Comment: How many reads for WGS Sequencing? by Mensur Dlakic ★ 27k
If you have Linux the assembly should work on your system, but 8 GB is generally not enough for assembling larger genomes.
Comment: How many reads for WGS Sequencing? by Mensur Dlakic ★ 27k
I think you might be getting stuck on less relevant parts of my exercise. The most important point was that nothing is wrong with the data.…
Comment: What does it mean single base resolution in sequencing? by dsull ★ 5.9k
Great comprehensive explanation and overview of the technologies -- with regards to sequencing assays, the one thing I'd add is SNV identif…
Answer: What does it mean single base resolution in sequencing? by dsull ★ 5.9k
I think that term means slightly different things in different contexts. For example, it's useful to profile mRNA modifications (e.g. m6a) …
Comment: Cannot process all the reads in a fast5 file? by chujie • 0
Hi, I met the same problem, have you found the solution?
Answer: What does it mean single base resolution in sequencing? by LauferVA 4.2k
Hi @fe3e6f65 , In a single sentence, the answer to your question can be summarized as, "*the resolution of a genomic technology refers to …
Comment: PCA plot by LauferVA 4.2k
Without more context, we cannot interpret this PCA plot. There are many possibilities. In addition, this question is basic enough that it w…
Traffic: 1663 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