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121,901 results • Page 628 of 2439
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1
vote
8
replies
3.2k
views
Protein Structure drawing on graph paper
Protein
updated 2.8 years ago by 45k • written 4.3 years ago by ▴ 140
5
votes
3
replies
2.3k
views
Download multiple SRA samples and convert into fasta format at once
fasta SRA fastq-dump prefetch
4.2 years ago by twangxxx • 0
7
votes
4
replies
1.7k
views
Should I remove an overrepresented sequence from one Fastq file from my RNA Seq data?
fastqc overrepresented RNA-Seq sequences
updated 4.2 years ago by ★ 2.9k • written 4.2 years ago by • 0
2
votes
5
replies
1.7k
views
Is it appropriate to resize peak before ATAC/ChIP-Seq differential peak analysis
ATAC
updated 4.2 years ago by ★ 1.3k • written 4.2 years ago by ▴ 30
1
vote
2
replies
900
views
is there a proper way to choose clusters in hierarchical clustering?
Hierarchical-clustering dendogram R
updated 4.2 years ago by 3.3k • written 4.2 years ago by ▴ 140
0
votes
0
replies
532
views
microanalysis of zebrafish genome
genomics
4.2 years ago by aranyak111 • 0
0
votes
1
reply
1.5k
views
CNVkit methods and parameters
WGS CNV analysis
updated 4.2 years ago by ▴ 60 • written 4.3 years ago by ▴ 20
0
votes
0
replies
779
views
cnvkit genemetrics --ttest
ffpe oncology cnv cnvkit cna
updated 4.2 years ago by 9.8k • written 4.2 years ago by ▴ 60
0
votes
0
replies
659
views
Correct way to write the names in the "product" field of a GTF file
gtf rnaseq annotation
4.2 years ago by arturo.marin ▴ 20
2
votes
2
replies
1.4k
views
How to convert ONT longread or illumina fastq to fasta file
denovo assembly genome
updated 4.2 years ago by ★ 30k • written 4.2 years ago by ▴ 10
1
vote
1
reply
1.4k
views
BGENIE vs REGENIE
bgenie regenie
updated 4.2 years ago by ▴ 40 • written 4.5 years ago by ▴ 20
2
votes
3
replies
1.9k
views
Polishing PACBIO corrected assembly using ONT and ILLUMINA data (.fastq)
fasta Nanopore long-read fastq
updated 17 months ago by 45k • written 4.2 years ago by ▴ 10
0
votes
0
replies
583
views
De novo assembly Sacffolding tool for long reads
genome scaffold
4.2 years ago by K ▴ 10
2
votes
2
replies
1.1k
views
How do I call compound hetrozygosity from multiple trios cohort?
ped gatk trio heterozygosity compound vcf
4.2 years ago by DareDevil ★ 4.4k
5
votes
6
replies
2.7k
views
How to check which genes affect a continuous phenotype
multiple-comparisons multiple-regression microarrays regression
3.9 years ago by Aspire ▴ 390
1
vote
7
replies
2.4k
views
Statistics of amino acid usage of multiple aligned sequences?
alignment
updated 4.2 years ago by 22k • written 6.5 years ago by ▴ 110
4
votes
2
replies
1.6k
views
Validate input file as BED file
R BED
updated 4.2 years ago by ★ 1.3k • written 4.3 years ago by ▴ 40
0
votes
2
replies
868
views
Genotype
genetic
updated 4.3 years ago by 45k • written 4.3 years ago by • 0
1
vote
2
replies
3.5k
views
problem for installing packages
ReactomePA
4.3 years ago by fahim ▴ 20
3
votes
4
replies
5.3k
views
Error in ComBat function: Error in dat[, batch == batch_level] : (subscript) logical subscript too long
Batch-effect microarray R
updated 17 months ago by 45k • written 4.3 years ago by ▴ 80
0
votes
0
replies
645
views
Counting number of NSMs from WES variants
variants VCF WES SNPEFF
4.3 years ago by tomer9w • 0
2
votes
2
replies
1.5k
views
Get read id's from .sam file
sam
updated 4.3 years ago by 166k • written 4.3 years ago by ▴ 80
1
vote
0
replies
652
views
functional annotation and gene quantification
functional shotgun annotation
updated 4.2 years ago by 45k • written 4.3 years ago by ▴ 10
0
votes
0
replies
555
views
SNP tissue expression
R GTEx
updated 4.3 years ago by 153k • written 4.3 years ago by ▴ 10
3
votes
1
reply
1.2k
views
What is the fastest way to create an online server that allows searching through a table
database searchable online query
updated 4.3 years ago by ★ 2.2k • written 4.3 years ago by ▴ 100
0
votes
0
replies
816
views
How to determine protein subsites?
Protein 3D Pymol
updated 4.2 years ago by 45k • written 4.3 years ago by ▴ 10
0
votes
1
reply
821
views
How to interpret terms with “positive” and “negative” specifiers
gene GO term ontology
4.3 years ago by chriselhadi • 0
2
votes
1
reply
1.0k
views
Error: unexpected symbol using BiomaRt in R
ensembl r biomart biomaRt R
updated 4.3 years ago by 89k • written 4.3 years ago by • 0
4
votes
1
reply
2.7k
views
How to tell if enrichment is good or bad from GSEA plot
genes gsea enrichment
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 380
3
votes
2
replies
991
views
whole genome analyses
python
updated 4.2 years ago by • 0 • written 4.3 years ago by ▴ 20
3
votes
5
replies
3.0k
views
generate FASTA/MSA from VCF file
VCF MSA FASTA
updated 3.7 years ago by ▴ 40 • written 4.3 years ago by ▴ 10
1
vote
1
reply
1.7k
views
Primer matching with sequence using biopython
primers Biopython alignment
updated 4.3 years ago by ★ 2.9k • written 4.3 years ago by • 0
0
votes
4
replies
2.4k
views
Can't index .bed file with tabix
bed tabix leafcutter
updated 4.3 years ago by ★ 4.3k • written 4.3 years ago by • 0
1
vote
2
replies
1.3k
views
Fasta file for Whole exome sequencing analysis
WES Gencode
updated 2.5 years ago by 45k • written 4.3 years ago by • 0
0
votes
3
replies
1.3k
views
Snakefile - problem with too many outputs
snakemake snakefile
updated 4.3 years ago by ★ 1.5k • written 4.3 years ago by ▴ 30
0
votes
0
replies
847
views
LOESS Normalization Explanation
proteomics pre-processing InfernoRDN normalization
4.3 years ago by gt ▴ 30
0
votes
5
replies
1.8k
views
about bowtie parameter --fr and --rf
ATAC reads paired bowtie2
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 10
0
votes
1
reply
1.1k
views
Combining NES and FDR q-values over gene set clusters (Enrichmentmap) in GSEA
GSEA
4.3 years ago by lsy9 ▴ 20
2
votes
3
replies
1.4k
views
Get upstream and downstream exon's starting site and ending site of an retained introns
RNAseq
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 130
3
votes
3
replies
4.0k
views
GCTA make GRM error contains illegal chr number
plink GCTA
4.3 years ago by Star:) ▴ 50
0
votes
0
replies
443
views
Combining 2 sets of samples.
Gwas
updated 4.3 years ago by 89k • written 4.3 years ago by • 0
0
votes
5
replies
1.5k
views
FeatureCounts Number of Reads
RnaSeq FeatureCounts
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 40
7
votes
3
replies
2.0k
views
high duplication events in shotgun metagenomics
MAG metagenomics duplication
4.2 years ago by alexis ▴ 30
3
votes
7
replies
5.2k
views
Plink 1.9 "File read failure" error when merging with --bmerge
plink gwas error
updated 4.3 years ago by ▴ 40 • written 6.6 years ago by ▴ 20
0
votes
1
reply
716
views
Dual RNA-seq differential gene expression analysis
deseq2 rnaseq dual
updated 4.3 years ago by 89k • written 4.3 years ago by • 0
0
votes
4
replies
1.6k
views
Compare gene coverage across group o samples
gene coverage
4.2 years ago by roalva1 ▴ 100
5
votes
13
replies
3.5k
views
Bowtie2 problem when use aligned or unaligned output file for re-alignment
bowtie2
4.2 years ago by daewowo ▴ 80
0
votes
0
replies
742
views
retrieve all significant motifs from meme suite programs
meme
4.3 years ago by boczniak767 ▴ 880
0
votes
2
replies
1.1k
views
How can each file be commanded separately with multiple files in R??
R
updated 2.2 years ago by 45k • written 4.3 years ago by • 0
1
vote
1
reply
2.0k
views
What format should a dataframe be in to use the AddMetaData function in Seurat?
seurat R RNA-Seq rna-seq scRNA-seq
4.3 years ago by Pratik ★ 1.1k
121,901 results • Page 628 of 2439
Recent Votes
Shift in RNA 3' position, Term-Seq vs RNASeq
Comment: STARlong for pacbio Isoseq reads
Comment: Automatically annotating a feature using a genbank file
Answer: Is this PCA plot correct??
Answer: Is this PCA plot correct??
Comment: Is this PCA plot correct??
Subsetting before QC in Spatial Transcriptomics
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Recent Replies
Comment: STARlong for pacbio Isoseq reads by Buffo ★ 2.4k
Thanks, I'll give it a try.
Comment: STARlong for pacbio Isoseq reads by GenoMax 153k
You could give `mapPacBio.sh` from BBMap suite a try while you wait for other answers. That works for reads up to 6 kb. BBMap has a new hom…
Comment: STARlong for pacbio Isoseq reads by Buffo ★ 2.4k
The average is 1.8kb. I was planning to post it on GitHub, but it seems like the repository has been unattended for the last months, so I d…
Comment: Getting just fastqc.zip file? by GenoMax 153k
Yes, You can either use it on command line or use the graphical user interface.
Comment: STARlong for pacbio Isoseq reads by GenoMax 153k
What is the average length of your reads? That error sounds like a bug, so you may want to post that on `STAR` repo as an issue. I assume …
Comment: Getting just fastqc.zip file? by pourhangleila95 • 0
I want to perform fastQC on my data.Do you use fastQC software for doing it?
Comment: Whole Genome Sequencing IG regions by 719 • 0
Sorry for the poor wording of the original post, also should say I really appreciate people taking a moment to look at my post. My main con…
Comment: Is total miRNA in EV constant? Implications for library size normalization. by Thomas.H.Hampton ▴ 10
Thanks again for your carefully considered reply. You asked what I am hoping to learn from a DE analysis. Autologous stem cells are well …
Comment: Subsetting before QC in Spatial Transcriptomics by Kent ▴ 30
Hi ATpoint, thank you very much for the helpful insight! I'm still doing some literature reading on this myself, but have you come across a…
Comment: Whole Genome Sequencing IG regions by ATpoint 89k
The question is what you are after. Is this a disease setup, or...well, what is this all about. Generally, these regions are hotspots of hy…
Comment: Whole Genome Sequencing IG regions by Pierre Lindenbaum 166k
please define "interesting"
Comment: Hifiasm is getting killed while trying to assemble a genome by pranavdatar01 • 0
These are PacBio HiFi reads (total reads 5,237,005), and the total data size is 255 GB. I am the only user on the system.
Comment: Subsetting before QC in Spatial Transcriptomics by ATpoint 89k
Yes, absolutely. It is even (to me) a good practice to do (automated) crude celltype assignment first because QC metrics, such as number of…
Comment: Hifiasm is getting killed while trying to assemble a genome by pranavdatar01 • 0
I am expecting the genome to be around 1.5 Gb.
Comment: Hifiasm is getting killed while trying to assemble a genome by GenoMax 153k
> I even tried to decrease the number of threads and even used -f0, but nothing is working out. What kind of dataset is this? How many r…
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