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121,194 results • Page 622 of 2424
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5
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3.2k
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plink2 reorder alleles by fasta reference
PLINK2
updated 3.9 years ago by 11k • written 3.9 years ago by ▴ 100
0
votes
7
replies
3.2k
views
Diffbind:dba.plotProfile error: each range must have an end that is greater or equal to its start minus one
Diffbind Bioconductor R
updated 3.9 years ago by 45k • written 3.9 years ago by • 0
1
vote
2
replies
2.2k
views
Extract transcript fasta using gff
fasta gff
3.9 years ago by boczniak767 ▴ 870
1
vote
2
replies
897
views
aligning reads against shorter region
alingment Bowtie2
3.9 years ago by Juke34 9.2k
0
votes
8
replies
2.5k
views
Logfold change (Limma Package) in methylation association studies
limma logfoldchange
updated 11 months ago by ★ 3.1k • written 3.9 years ago by ▴ 10
0
votes
0
replies
1.1k
views
How to run coverage2cytosine
Bismark coverage2cytosine DNA-methylation
3.9 years ago by linelr ▴ 40
0
votes
0
replies
1.3k
views
Error in (1 - h) * qs[i] : non numeric argument to binary operator
Rstudio
updated 3.9 years ago by 45k • written 3.9 years ago by • 0
1
vote
1
reply
850
views
Job: BIG DATA MANAGER AND BACK-END DEVELOPER (M/W)
DATA
updated 3.9 years ago by 45k • written 3.9 years ago by • 0
0
votes
0
replies
682
views
How to generate a file where we get the list of common Genes expressed in each combination in a venn diagram
venndiagram R DEG
3.9 years ago by aka ▴ 10
2
votes
3
replies
1.2k
views
What is the minimum read lenght to filter in modern samples?
minimum lenght DNA modern read
updated 3.9 years ago by 151k • written 3.9 years ago by • 0
0
votes
3
replies
1.2k
views
Identifying samples from COSMIC/cBioportal etc with only a specific driver mutation
cancer genomics
updated 3.9 years ago by 45k • written 3.9 years ago by • 0
0
votes
3
replies
1.3k
views
How to rename the fasta header in a multifasta file
fasta seqkit
updated 3.9 years ago by 21k • written 3.9 years ago by ▴ 80
0
votes
0
replies
866
views
Job: Junior Chemical Engineer with Techno-Economic Assessment Skills at DTU Biosustain
AspenPlus chemical engineering SuperPro biosustain DTU
3.9 years ago by info ▴ 80
0
votes
1
reply
911
views
genome build for --extract bed1 file in PLINK
build bed plink genome
updated 3.9 years ago by 11k • written 3.9 years ago by • 0
0
votes
0
replies
609
views
Would someone know why unappropriate "genomeSAindexNbases" value causes Segmentation Fault?
Indexing STAR
3.9 years ago by maxdlf12 • 0
1
vote
3
replies
1.7k
views
Custom genome installation in SigProfileMatrixGenerator
genome custom SigProfilerMatrixGenerator
2.1 years ago by Ian 6.1k
1
vote
5
replies
1.2k
views
construction of a database of bacterial genomic and protein sequences
sql database mysql
updated 3.9 years ago by 45k • written 3.9 years ago by ▴ 20
1
vote
3
replies
1.8k
views
organism source of isolation and country source
sequence genome
updated 3.9 years ago by • 0 • written 9.0 years ago by • 0
3
votes
3
replies
2.6k
views
Remove prefix chrom:position before rsIDs
plink regex bim snp
updated 3.9 years ago by 9.0k • written 8.1 years ago by ▴ 30
10
votes
10
replies
3.5k
views
6 follow
How do I make a ComplexHeatmap from this dataframe?
scaling scale heatmap
3.9 years ago by Pratik ★ 1.1k
0
votes
3
replies
1.9k
views
Corrupted dbsnp-vcf?
BCFTOOLS VCF Imputation
3.9 years ago by Filago ▴ 100
0
votes
0
replies
1.9k
views
Class code selection ; GffCompare ; Novel transcript
codes GffCompare Class RNA-Seq StringTie
3.9 years ago by SKY ▴ 60
5
votes
2
replies
1.4k
views
Bedtools intersect, order of input bed files result in different outputs?
bedtools
updated 3.9 years ago by 12k • written 4.0 years ago by ▴ 80
1
vote
4
replies
1.3k
views
Incorrect Gene coordinates in GBFF File
Gene Coordinate GBFF
3.9 years ago by amar.kant20422 • 0
0
votes
1
reply
842
views
Tool to find first stop-codon in a given ORF
python codon ORF stop R
updated 3.9 years ago by 15k • written 3.9 years ago by • 0
1
vote
6
replies
5.8k
views
syntax error near unexpected token `('
script shell
updated 3.9 years ago by 45k • written 3.9 years ago by • 0
1
vote
1
reply
1.2k
views
extract only 5' information of BAM file
BAM
updated 3.9 years ago by 9.0k • written 3.9 years ago by ▴ 10
2
votes
2
replies
1.0k
views
Bacterial metatranscriptomics with DESEQ2?
metatranscriptomics RNA-SEQ
3.9 years ago by shail.nair05 ▴ 20
43
votes
19
replies
14k
views
9 follow
Basic Bam File Annotation
bedtools bam htseq annotation rseqc
3.9 years ago by Jeremy Leipzig 23k
0
votes
0
replies
837
views
high resolution deconvolution problem
cibersort deconvolution rna-seq
3.9 years ago by demoraesdiogo2017 ▴ 110
2
votes
2
replies
1.3k
views
Can I carrying out a WGCNA analysis with multiple traits?
WGCNA
3.9 years ago by Lalaland ▴ 40
4
votes
10
replies
3.1k
views
Sorting of a bam file takes toooo long time
linux bam
updated 2.2 years ago by 45k • written 4.0 years ago by ▴ 30
1
vote
2
replies
1.0k
views
BLASTP local vs website
blastp
3.9 years ago by timothy.kirkwood ▴ 140
0
votes
0
replies
1.5k
views
How to plot rarefaction curves in R using Vegan?
gene richness rarefaction R
3.9 years ago by anikcropscience ▴ 270
0
votes
1
reply
1.5k
views
Can BOLT-LMM_v2.3.2 handle BGEN v3 format data released by UK biobank?
UK Biobank BGEN BOLT-LMM gene genotype
updated 3.9 years ago by • 0 • written 5.8 years ago by ▴ 10
0
votes
1
reply
1.7k
views
Forum: Basic beginner bioinformatics for biochemistry for university first year students
books course
updated 3.9 years ago by 12k • written 4.0 years ago by • 0
0
votes
5
replies
1.7k
views
Comparing two bai files
BAM BAI
updated 3.9 years ago by 15k • written 4.0 years ago by ▴ 90
0
votes
0
replies
668
views
How to print the best matching hit while making a BLAST search? / BioPython
biopython blast best_hit_overhang max_hpsp hit
3.9 years ago by sezer.sevin • 0
4
votes
3
replies
3.8k
views
How do I count the real total reads from a fastq file?
NGS Fastq End Paired Sequencing
updated 3.1 years ago by ▴ 110 • written 4.0 years ago by ▴ 10
1
vote
7
replies
2.1k
views
Basic annotation of refseq bacterial genomes
annotation bacteria
3.9 years ago by biobiu ▴ 150
2
votes
4
replies
1.8k
views
Subsampling reads
metagenome metagenomics microbial
4.0 years ago by amy ▴ 20
5
votes
4
replies
3.4k
views
Difference between Meta'omics and Multi'omics
Omics
updated 4.0 years ago by ▴ 180 • written 4.0 years ago by ▴ 250
0
votes
0
replies
804
views
trmap alternative for gffcompare?
GffCompare Novel-Transcripts StringTie RNA-Seq
4.0 years ago by SKY ▴ 60
1
vote
2
replies
1.9k
views
How to extract subset of protein structure (PDB format) file based on a subsequence of protein
protein pdb python r
updated 3.9 years ago by ▴ 390 • written 4.0 years ago by ▴ 380
4
votes
1
reply
3.0k
views
Does HaploView perform phasing?
HaploView Phasing PHASE fastPHASE Haplotypes
updated 4.0 years ago by ▴ 20 • written 8.2 years ago by ▴ 150
0
votes
0
replies
879
views
Novel transcript class code GffCompare?
Novel-Transcripts GffCompare RNA-Seq
4.0 years ago by SKY ▴ 60
1
vote
2
replies
3.0k
views
Spatial transcriptomics data
seurat scanpy no-visium .h5 spatial
3.9 years ago by lsudupe ▴ 20
4
votes
4
replies
6.2k
views
Installing samtools version 1.12
samtools
updated 3.9 years ago by 105k • written 4.0 years ago by ▴ 90
0
votes
0
replies
774
views
how to install non-condo dependency and add it to .yaml env file?
snakemake
4.0 years ago by AnnaS • 0
0
votes
0
replies
642
views
tRNA fragment
RNA-seq small
4.0 years ago by 972050141 • 0
121,194 results • Page 622 of 2424
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Comment: Where can I find somatic whole-genome or exome FASTQ files (from tumor samples)
Copy Number Variants with CNVKit
Answer: Detection SNPs and Indels Bacteria
Answer: Where can I find somatic whole-genome or exome FASTQ files (from tumor samples)
Several errors in DROP Workflow
Single probe id for multiple genes in Microarray
Single probe id for multiple genes in Microarray
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Recent Replies
Comment: Perturb seq by GenoMax 151k
While you wait for answers a search brought up this analysis workflow: https://satijalab.github.io/Mixscale/
Comment: Facing issue with output of nextflow pipeline by colindaven 7.4k
Yeah, this looks like a hack.This page has more standard patterns - https://nextflow-io.github.io/patterns/ - You don't need the `mkdir` …
Comment: Where can I find somatic whole-genome or exome FASTQ files (from tumor samples) by CHOCADAPASSADAEMCHOQ • 0
Thank you so much!! So kind!
Comment: Analysing Problem Seen In MEGA X by humarafique.1234 • 0
I'm also facing the same issue. Have you been able to find a way to fix it?
Comment: How to visualize Combat-seq corrected counts by ybw8gh • 0
Sorry, I accidentally used ComBat! ComBat-seq did not produce negative counts. Thanks for all the help!
Answer: Trimmomatic command by swbarnes2 14k
Keep in mind for RNASeq 1) if the library was done properly, it's very unlikely you have many fragments shorter than your read length. …
Comment: Setaria Pan-Genome Variation: Unraveling the Story of Domestication by cmdcolin ★ 4.2k
>de novo assembled 110 reference-grade genomes for cultivated Setaria accessions this type of routine de novo assembly of genomes is aweso…
Comment: Facing issue with output of nextflow pipeline by ATpoint 88k
It looks hacky. Maybe it "works" but should not be taken as inspiration I guess. Are you sure output could be redicted to other processed l…
Comment: Discrepancy Between Reported Nitrogen-Fixing Ability and Genomic Evidence in Aci by GenoMax 151k
Have you considered the possibility that if no strains of Acinetobacter guillouiae available in NCBI show presence of nitrogen fixing genes…
Answer: Facing issue with output of nextflow pipeline by neng ▴ 50
This is a common issue that many learners encounter when working with Nextflow output management. 1. Use publishDir("${params.outdir}/..…
Comment: Discrepancy Between Reported Nitrogen-Fixing Ability and Genomic Evidence in Aci by Nafi • 0
Yes, I have tested all of them. I guess NCBI does not have this particular strain.
Answer: Pie Charts: to use or not to use by Joe 22k
As with any visualisation method, there is a time and a place for them. They are often misused, or used when a different method would be be…
Answer: Pie Charts: to use or not to use by Bastien Hervé 6.3k
Your first paragraph is answering the latter and as said in the second paragraph, one cannot force people not to use it. It is like RPKM/F…
Comment: Target prediction by dthorbur ★ 3.0k
I'm unfamiliar with the representation of phytochemicals in either database, so can't answer for certain, but generally I would say both da…
Answer: Minimum Number of Cells for Downstream Analysis after subsetting a particular ce by ATpoint 88k
There is no answer to this. Some people will say 10, other 3, others 500. Generally, since single-cell is noisy and has dropouts, even for …
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