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121,191 results • Page 427 of 2424
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2
votes
1
reply
722
views
merge microarray from different platforms for differentially expressed gene analysis
merge differential microarray genetic analysis
updated 3.1 years ago by 88k • written 3.1 years ago by ▴ 20
0
votes
1
reply
569
views
snpEff predicts stop_gained, but SNP wouldn't produce a stop codon
snpEff wrong prediction stop_gained
updated 3.0 years ago by 102k • written 3.1 years ago by • 0
3
votes
5
replies
1.2k
views
technical replicates
replicates technical
3.0 years ago by myfam128 • 0
0
votes
0
replies
343
views
Concatenating two flowSets with overlapping sampleNames
flow flowsets cyto cytometry R
3.1 years ago by George • 0
1
vote
7
replies
1.9k
views
Barplot of 4 groups with p-val in R
pvalue barplot r
3.1 years ago by ve9 ▴ 50
2
votes
5
replies
1.3k
views
Bash command to search a fasta file for a sequence segment and to print the neighboring region of the match in every read
Bash Match Sequence print search
updated 3.0 years ago by 55k • written 3.1 years ago by • 0
1
vote
2
replies
1.6k
views
picard tools installation problems
picard-tools collecthsmetrics
updated 23 months ago by 45k • written 3.1 years ago by • 0
0
votes
4
replies
1.0k
views
RNA-seq alignment in UNIX
index sequencing hisat2 RNA
updated 3.1 years ago by 88k • written 3.1 years ago by • 0
2
votes
2
replies
769
views
IsoformSwitchAnalyzeR: object 'analysisAllIsoformsWithoutORF' not found
splicing IsoformSwitchAnalyzeR Alternative
3.1 years ago by VenGeno ▴ 100
0
votes
0
replies
542
views
Job: Nanofabrication Facility Staff Scientist
Foundry Molecular
3.1 years ago by BerkeleyLab ▴ 70
3
votes
1
reply
731
views
Detect outlier
outlier Detecting
updated 3.1 years ago by ▴ 930 • written 3.1 years ago by ▴ 30
1
vote
1
reply
701
views
How to compute t-statistic
t-statistic LDSC-SEG
updated 3.1 years ago by ▴ 930 • written 3.1 years ago by ▴ 10
0
votes
2
replies
764
views
near by genes for Variant
variantgene
updated 3.1 years ago by 21k • written 3.1 years ago by • 0
2
votes
1
reply
915
views
How can I validate the results by the software package, I have recently developed using python for genomic data?
Python analysis scRNA-seq software Packages
updated 3.1 years ago by ▴ 930 • written 3.1 years ago by ▴ 90
0
votes
1
reply
664
views
Advice with an Unannotated gene
genetics genomics variants gene
updated 3.1 years ago by ▴ 570 • written 3.1 years ago by • 0
2
votes
1
reply
836
views
Accessing TopMed or 1000g ancestry data (GRCh38)
ancestry PLINK TOPMed GWAS PCA
updated 3.1 years ago by 11k • written 3.1 years ago by • 0
1
vote
0
replies
637
views
Herald: The Biostar Herald for Thursday, April 28, 2022
herald
3.1 years ago by Biostar 3.5k
3
votes
2
replies
1.3k
views
Gene ontology and GSEA
GSEA
updated 3.1 years ago by 3.3k • written 3.1 years ago by ▴ 180
1
vote
6
replies
1.7k
views
Problem with adapters and taxonomy
taxonomy adapters kraken
updated 3.1 years ago by 102k • written 3.1 years ago by ▴ 110
1
vote
1
reply
963
views
Problem with the total number of variants in my .map .ped files from PLINK
PLINK map ped
updated 3.1 years ago by 45k • written 3.1 years ago by • 0
5
votes
5
replies
3.4k
views
Homer makeTagDirectory does not generate the tagInfo.txt file
tagInfo.txt Homer HiC Paired data
updated 3.1 years ago by 151k • written 3.2 years ago by ▴ 30
2
votes
13
replies
2.1k
views
How to separate plasmid from whole complete genome
genebank ncbi
updated 3.1 years ago by 151k • written 3.1 years ago by ▴ 20
3
votes
7
replies
1.3k
views
How to analyze the differential expression of a gene if it has several ensembl id
data RNA-seq DE analysis
updated 3.1 years ago by 151k • written 3.1 years ago by • 0
1
vote
1
reply
579
views
Pathogenicity prediction experiment
VEP VCF ensembl pathogenicity
3.1 years ago by Newbie • 0
1
vote
2
replies
800
views
Building an extended PPI network in Cytoscape without BisoGenet
PPI network Cytoscape
3.1 years ago by amir.rakhimov.b • 0
3
votes
5
replies
2.0k
views
Getting Uniprot IDs of a set of Genes
UniprotKB ID_mapping
updated 3.0 years ago by ★ 2.4k • written 3.1 years ago by • 0
2
votes
4
replies
2.1k
views
whatsHap didn't phase all variants
whatsHap phasing
updated 3.1 years ago by • 0 • written 4.0 years ago by • 0
0
votes
1
reply
1.2k
views
Jellyfish for Paired End Reads
k-mer fastq Jellyfish counting fasta
updated 3.1 years ago by 151k • written 3.1 years ago by • 0
1
vote
1
reply
1.1k
views
phasing VCF files with missing genotype
Phasing
updated 3.1 years ago by • 0 • written 3.5 years ago by ▴ 10
0
votes
0
replies
1.1k
views
Job: Tenure Track Assistant Professor or Associate Professor of Biostatistics at Department of Public Health, Aarhus University
Health Biostatistics Public statistics theoretical
3.1 years ago by info ▴ 80
3
votes
11
replies
2.3k
views
Help with massive SRA download of mixed file types (SE fastq, PE fastq, bam)
sra-toolkit faster-dump SRA
updated 3.1 years ago by ★ 18k • written 3.1 years ago by ▴ 10
2
votes
1
reply
1.2k
views
Job: Junior bioinformatician in italy
Italy
updated 2.9 years ago by 45k • written 3.1 years ago by ▴ 110
0
votes
3
replies
1.9k
views
Cutadapt issues when running nfcore pipeline
methylseq trimgalore cutadapt nfcore
updated 3.1 years ago by 5.1k • written 3.1 years ago by • 0
1
vote
1
reply
638
views
WGCNA - plotMat colors - how to change from RedGreen
WGCNA
updated 3.1 years ago by 3.9k • written 3.1 years ago by • 0
1
vote
0
replies
553
views
Relatedness with KING vs heterogeneous data
relatedness
3.1 years ago by German.M.Demidov ★ 3.0k
0
votes
0
replies
479
views
Fake indels and artificially low coverage in bcftools mpileup when using close references
snp samtools bcftools mpileup
updated 23 months ago by 45k • written 3.1 years ago by ▴ 10
7
votes
5
replies
2.9k
views
what is the benefit of the de bruijn algorithm for short read assembly?
Assembly de Bruijn algorithm K-mer
updated 3.1 years ago by 55k • written 8.6 years ago by ★ 1.9k
0
votes
3
replies
2.4k
views
How to get a pdb of the second chain of a homodimer using VMD?
vmd
updated 3.1 years ago by ▴ 380 • written 10.2 years ago by • 0
0
votes
4
replies
3.7k
views
Is there any easy way to get ASA/RSA for the whole PDB?
pdb asa protein
updated 3.1 years ago by ▴ 380 • written 10.2 years ago by ▴ 130
3
votes
5
replies
1.7k
views
[E::bwa_idx_load_from_disk] fail to locate the index files
alignment BWA
3.1 years ago by melissachua90 ▴ 70
3
votes
2
replies
864
views
Tools for finding a walk in a De Bruijn graph
assembly dbsp debruijn
updated 3.1 years ago by 5.1k • written 3.1 years ago by ▴ 20
1
vote
2
replies
1.0k
views
Error The tag ING/CSQ not found in the header using bcftools
vcf bcftools
3.1 years ago by Manuel ▴ 50
8
votes
3
replies
1.2k
views
MultiQC output shows that data processing steps are ineffective
FastQC trimming
updated 2.0 years ago by 45k • written 3.1 years ago by ▴ 70
1
vote
4
replies
1.1k
views
Two rounds of batch effect removal
DESeq2 removeBatchEffect
3.1 years ago by Kazuna • 0
4
votes
3
replies
1.1k
views
PAINS
PAINS
updated 3.1 years ago by 151k • written 3.1 years ago by • 0
1
vote
3
replies
962
views
How to obtain genomic coordinates of novel transcripts?
ensembldb r
updated 3.1 years ago by 88k • written 3.1 years ago by ▴ 60
0
votes
3
replies
1.3k
views
miRNA-seq alignment bowtie2
hisat2 alignment miRNA-seq bowtie2
3.0 years ago by imaparna27 ▴ 20
0
votes
2
replies
875
views
Adding RNA-seq data to machine learning
machine learning
3.1 years ago by hafiz.talhamalik ▴ 350
3
votes
4
replies
1.1k
views
Extract 16S rRNA gene from GenBank files?
NCBI 16S
3.1 years ago by MSRS ▴ 590
0
votes
2
replies
1.5k
views
Remove polymorphic SNPs from VCF file
SNP
updated 3.1 years ago by • 0 • written 5.0 years ago by ▴ 60
121,191 results • Page 427 of 2424
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Single probe id for multiple genes in Microarray
Single probe id for multiple genes in Microarray
C: I can not run bcftools stats (help)
Answer: Minimap2 error in Flye de novo assembly
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Answer: How to visualize Combat-seq corrected counts
Comment: How to visualize Combat-seq corrected counts
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Recent Replies
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 …
Answer: Discrepancy Between Reported Nitrogen-Fixing Ability and Genomic Evidence in Aci by Mensur Dlakic ★ 29k
The specific strain described in that paper (*Acinetobacter guillouiae* EU-B2RT.R1) doesn't seem to be available in NCBI. It could be as si…
Comment: Heatmap of a transformed deseq object with pheatmap by GenoMax 151k
Please use `ADD REPLY/ADD COMMENT` when responding to existing posts. `ADD ANSWER` is only for new answers to original question.
Comment: Heatmap of a transformed deseq object with pheatmap by caroline.zanchi • 0
...I decided to try 'ComplexHeatmap' : ```r ha = HeatmapAnnotation(df = annot_col, which="column",show_annotation_name = FALSE,show_legend=…
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