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121,912 results • Page 700 of 2439
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5
votes
2
replies
1.1k
views
Split Multimer Sequences at motif in FASTQ
sequencing next-gen fastq split motif
updated 4.5 years ago by 153k • written 4.5 years ago by ▴ 10
4
votes
3
replies
3.0k
views
Basecalling of Nanopore Raw file
sequencing next-gen genome
4.5 years ago by AS-git • 0
0
votes
2
replies
1.7k
views
Get TSS information from GFF3 file depending on strand
TSS GFF
updated 4.5 years ago by ▴ 540 • written 4.5 years ago by • 0
4
votes
4
replies
1.3k
views
Check for duplicates and determine sex from the VCF in a cohort of about 110 patients
NGS quality-control KING
updated 3.6 years ago by 45k • written 4.5 years ago by ▴ 20
0
votes
2
replies
1.0k
views
Fatal error in galaxy program
RNA-Seq next-gen sequence
4.5 years ago by ashwing.kofficial ▴ 10
3
votes
2
replies
860
views
Different symbols in genotype field in VCF files
gene SNP
4.5 years ago by khatami.mahshid ▴ 30
17
votes
7
replies
6.4k
views
Remove uncharacterized chromosomes from reference fasta file
Assembly genome sequence next-gen
updated 4.5 years ago by 13k • written 4.5 years ago by ▴ 540
0
votes
0
replies
1.1k
views
Job: Bioinformatician position in multi-omics modeling of renal cancer biology for precision medicine (CEA, France)
cancer-biology multi-omics precision-medicine
updated 2.2 years ago by 45k • written 4.5 years ago by • 0
0
votes
4
replies
923
views
How Can determine which one of two similar genes is expressing in RNAseq data ?
RNA-Seq
4.5 years ago by yiren ▴ 10
0
votes
0
replies
352
views
SNPCHIP data analysis
ChIP-Seq genome sequencing
4.5 years ago by arfazevedo • 0
0
votes
0
replies
499
views
some questions about the bacteria sRNA
rna-seq
4.5 years ago by 972050141 • 0
0
votes
0
replies
1.3k
views
Tools for .hic file visualization
juicer 3d-dna hic
4.5 years ago by Picasa ▴ 690
0
votes
1
reply
964
views
Regarding biological replicates in DNA methylation analysis
genome sequence R
updated 4.5 years ago by 20 • written 4.6 years ago by • 0
0
votes
0
replies
801
views
Get full output with hmmscan in bio3d
bio3d
4.5 years ago by lessismore ★ 1.4k
1
vote
4
replies
1.6k
views
Bedtools fisher error
BEDtools bedtools Fisher's exact test error
4.5 years ago by hemr3 ▴ 10
0
votes
2
replies
1.9k
views
Combine a sample that is run in two lanes by the Seurat objects
RNA-Seq R rna-seq scRNA-seq seurat
4.5 years ago by Mehrdad Zandigohar • 0
2
votes
7
replies
1.6k
views
help with deleting multiple fasta sequences using biopython
genome sequence sequencing python
updated 4.5 years ago by 22k • written 4.5 years ago by ▴ 10
4
votes
8
replies
2.8k
views
How do I install Boost and the bjam build engine for Cufflinks
RNA-Seq rna-seq next-gen
updated 2.3 years ago by ▴ 10 • written 4.5 years ago by ▴ 10
0
votes
2
replies
678
views
Any Group to collaborate on research for genome scale model?
Genome scale model metabolic engineering
4.5 years ago by enuhblaise • 0
0
votes
5
replies
2.1k
views
Problem with import of multiVCF by readData from popgenome R package
R popgenome readData vcf multiVCF
4.5 years ago by pavlo.maksimov • 0
0
votes
0
replies
471
views
Can we get information regarding microRNA expression from small RNA-seq ?
RNA-Seq next-gen
updated 4.5 years ago by 89k • written 4.5 years ago by • 0
0
votes
0
replies
666
views
copy number variation, chrom plot
gene
4.5 years ago by Rob ▴ 180
0
votes
0
replies
434
views
.geo file for a SAMOVA analysis
gene SAMOVA
4.5 years ago by ally • 0
2
votes
3
replies
8.5k
views
Adding extra labels (lines and text) in pheatmap R
RNA-Seq R pheatmap code
updated 4.5 years ago by ★ 1.7k • written 4.5 years ago by ▴ 390
0
votes
0
replies
923
views
Job: Job: CRISPR Microbiome Bioinformatician
bioinformatician CRISPR denmark microbiome
updated 2.2 years ago by 45k • written 4.5 years ago by • 0
1
vote
4
replies
1.5k
views
Malformed BAM while running GATK
GATK BAM Read group Barcode
4.5 years ago by shivangi.agarwal800 ▴ 120
3
votes
9
replies
2.5k
views
Merging position of all different CDS of a single gene in one line
CDS GFF gene duplication
updated 4.5 years ago by 20 • written 7.0 years ago by ▴ 60
6
votes
5
replies
6.1k
views
How to convert gvcf file to normal vcf file ?
vcf gatk gvcf
2.4 years ago by DareDevil ★ 4.4k
0
votes
1
reply
699
views
What is the diffecence between SMART-seq2 & Smart-seq2 protocol in single cell analysis?
RNA-Seq rna-seq sequencing next-gen
4.5 years ago by atulchandrasingha • 0
0
votes
1
reply
750
views
Genome sequence upload from NCBI in galaxy for RNA-seq data analysis
RNA-Seq next-gen alignment genome
4.5 years ago by microorganism_001 ▴ 30
0
votes
3
replies
993
views
Annotation with KEGGrest
RNA-Seq
updated 4.5 years ago by 103k • written 4.5 years ago by • 0
2
votes
2
replies
1.2k
views
DE Analysis on Scran-Normalized Counts
R RNA-Seq scRNA-Seq
updated 4.5 years ago by 20 • written 4.6 years ago by • 0
4
votes
4
replies
1.6k
views
Conserved amino acids at active site of an enzyme
alignment evolution
updated 4.5 years ago by ★ 30k • written 4.5 years ago by • 0
0
votes
1
reply
1.0k
views
DiffBind with duplicates
DiffBind ChIP-Seq
4.5 years ago by jc2842 • 0
51
votes
15
replies
74k
views
15 follow
Any Recommendations For Software For Drawing Plasmid Maps?
visualization software
updated 3.4 years ago by 45k • written 14.3 years ago by ▴ 70
0
votes
1
reply
786
views
How to remove symol name in Gviz?
Gviz
updated 4.5 years ago by 45k • written 4.5 years ago by ▴ 30
3
votes
6
replies
2.4k
views
Command line Taxa search within SRA / NCBI Trace
SRA Taxa Taxonomic taxonomy
updated 3.7 years ago by • 0 • written 4.5 years ago by ▴ 10
2
votes
2
replies
897
views
Differences between codon usage bias vs. differential transcript usage (DTU)
codon transcription dtu genome splicing
updated 4.5 years ago by ★ 30k • written 4.5 years ago by • 0
0
votes
0
replies
1.1k
views
cuffmerge gtf_to_sam error?
assembly cufflinks cuffmerge gtf_to_sam
4.5 years ago by debitboro ▴ 270
0
votes
3
replies
769
views
ps_scan pfscan: Syntax error: "(" unexpected
gene sequence genome Assembly rna
updated 4.5 years ago by 45k • written 4.5 years ago by • 0
0
votes
1
reply
1.3k
views
nextflow picard markduplicates fatal error
nextflow picard markduplicates
4.5 years ago by loum • 0
9
votes
13
replies
2.7k
views
Error in raw count file of .sam after alignment on GRCh38
RNA-Seq Assembly alignment sequencing
updated 4.5 years ago by 20 • written 8.4 years ago by • 0
3
votes
4
replies
1.1k
views
Extracting sequencing data from SRA accesion
rna-seq next-gen sequence
updated 4.5 years ago by ▴ 80 • written 4.5 years ago by ▴ 10
0
votes
0
replies
854
views
DESeq2 assay weights usage
deseq zinb-wave RNA-Seq rna-seq deseq2
4.5 years ago by prachitipprabhu • 0
0
votes
0
replies
558
views
Problem with GOChord function in GOplot
R RNA-Seq software error
4.5 years ago by dmitriylanshakov • 0
1
vote
1
reply
522
views
find sequence of HSP70i
sequencing
updated 4.5 years ago by ★ 30k • written 4.5 years ago by • 0
2
votes
7
replies
5.8k
views
FASTQC: overrepresented sequences
RNA-Seq
updated 4.5 years ago by ▴ 30 • written 4.6 years ago by • 0
1
vote
2
replies
948
views
How to annotate unclassified proteins?
annotation
updated 4.5 years ago by ★ 30k • written 4.5 years ago by ▴ 30
28
votes
20
replies
22k
views
10 follow
Apple M1 processor for bioinformactics
software error RNA-Seq R genome sequence
updated 2.6 years ago by ★ 2.9k • written 4.8 years ago by ▴ 80
0
votes
2
replies
1.5k
views
plotCorrelation scatter plot ChIP-seq data
ChIP-Seq deepTools correlation
4.5 years ago by Marco Pannone ▴ 810
121,912 results • Page 700 of 2439
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Getting VCF file for the 1000 genome project with rsid
Answer: Different UMAP for batch correction in R and Pytho
Answer: Different UMAP for batch correction in R and Pytho
Answer: Different UMAP for batch correction in R and Pytho
A: How to extract reads with no INDEL?
Answer: Different UMAP for batch correction in R and Pytho
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Recent Replies
Comment: Tried building a compact sequence format with 4-bit storage by Alex Reynolds 36k
In addition to looking at other tools as a baseline: https://en.wikipedia.org/wiki/Compression_of_genomic_sequencing_data maybe also look i…
Comment: Different UMAP for batch correction in R and Pytho by Madiha ▴ 10
Thanks, António for a helpful, detailed response. I didn't take into consideration that the plotting order of cells from each batch can be …
Comment: [vg giraffe] Unable to add read group to BAM file by saruman • 0
It seems that using the following format fixes the problem: --read-group "1 SM:HG002 LB:lib1 PL:illumina PU:unit1" As shown below: …
Comment: Developing a genomics ML model using bytes? by dariober 15k
> what if we can use the bytes to develop a model? My understanding is that the OP is considering building a model using the sequences in …
Comment: WGCNA package in R: dendogram plot error by RJ • 0
You might had delete the outliers from the expression table but then the traits data.frame doesn't match with expression table dimensions.
Comment: miRNA low mapping ratings by Ant ▴ 50
No, it's a personal dataset. I haven’t seen the link, but if I understand correctly, it's not possible to use the software for free, right?
Comment: miRNA low mapping ratings by GenoMax 153k
So this is a public dataset? QIAseq miRNA libraries may require special handling. Have you seen --> https://resources.qiagenbioinformatics.…
Comment: Trouble when installing arb by GenoMax 153k
Are you referring to software found here --> http://download.arb-home.de/release/latest/ ? If so why are you installing the source. Authors…
Comment: Hifiasm is getting killed while trying to assemble a genome by GenoMax 153k
All valid points. This is a SRA dataset. If it is covered by a publication hopefully it is not a bad one. @Pranav if you can post the SRA a…
Answer: Different UMAP for batch correction in R and Pytho by antonioggsousa 3.4k
Hi, I'm mostly an R user, but the codes you presented look correct to me. The two UMAP projections *"look too similar to be different"*, …
Answer: How to properly assemble phage genomes? by Joe 22k
This might help: https://millardlab.org/lab-members/alumni/lucy-gannon/lucys-beginner-guide-to-bacteriophage-genome-assembly/
Comment: RNA-SEQ where only a subset of genes is of interest by piffelpaff • 0
Thanks for your reply. Yes it's single-cell and we're talking about roughly 30 pre-selected genes. I see. I was rather referring to the d…
Answer: Best set of tools / workflows for predicting the biosynthesis pathways of comple by Joe 22k
This may not be exactly what you're looking for (kind of the other way around, predicting synthetic clusters from genes rather than the pro…
Comment: Developing a genomics ML model using bytes? by ATpoint 89k
How is this different from https://www.biostars.org/p/9615062/
Comment: Shift in RNA 3' position, Term-Seq vs RNASeq by npb27 ▴ 20
Hi thanks for your answer Interesting idea about ribosome length, although I can't think why this should affect the apparent 3' position b…
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