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79
votes
34
replies
7.7k
views
15 follow
Forum: Do bioinformaticians often break molecular biologists' hearts by being the first author?
authorship career
updated 15 hours ago by 38k • written 7.4 years ago by ▴ 650
50
votes
30
replies
10k
views
8 follow
How to get sample names and genotype for SNP in multi-sample VCF file
SNP genotype GATK
updated 19 hours ago by • 0 • written 5.1 years ago by ▴ 490
31
votes
34
replies
5.7k
views
11 follow
Forum: pros- and cons- : programming skills vs. GUI
programming lecture
updated 14 hours ago by 38k • written 7.3 years ago by ★ 4.6k
20
votes
7
replies
3.1k
views
Forum: Change career path
education career
updated 17 hours ago by 38k • written 7.4 years ago by ▴ 40
10
votes
5
replies
2.6k
views
Biopython or Bioperl help
next-gen RNA-Seq biopython sequence
updated 19 hours ago by 38k • written 7.4 years ago by ▴ 40
8
votes
4
replies
1.7k
views
Forum: Tutorials for families of cancer patients
diagnosis cancer
updated 17 hours ago by 38k • written 7.4 years ago by ▴ 70
7
votes
4
replies
2.7k
views
Why Chip-seq data cross correlation plot has fragment_lenth cross correlation peak and read-length peaks
chip-seq quality-control cross correlation
updated 16 hours ago by • 0 • written 3.8 years ago by ▴ 110
6
votes
5
replies
2.1k
views
Forum: Bioinformatics course good for microbiology student or not?
career
updated 14 hours ago by 38k • written 7.3 years ago by ▴ 10
5
votes
8
replies
1.5k
views
DiffBind missing peaks and FRiP
DiffBind ChIP-seq
updated 23 hours ago by ★ 1.7k • written 13 months ago by ▴ 20
5
votes
4
replies
2.2k
views
strand specificity of TFBS
motif transcription-factor TFBS
updated 17 hours ago by 38k • written 7.4 years ago by ▴ 80
4
votes
2
replies
144
views
Getting Intron Positions from Amino Acid Sequences
acid positions amino sequences intron
18 hours ago by fafad046 • 0
4
votes
8
replies
6.4k
views
SNPs located in promoter region. OR exon, intron, 5'UTR, 3'UTR
SNP
updated 14 hours ago by 38k • written 7.3 years ago by • 0
4
votes
4
replies
2.1k
views
What protein structure do human proteins refer to?
protein protein-structure
updated 17 hours ago by 38k • written 7.4 years ago by ▴ 10
3
votes
3
replies
227
views
PTM-aware protein folding / docking
docking protein-structure folding
updated 16 hours ago by ★ 23k • written 2 days ago by 2.2k
3
votes
9
replies
2.9k
views
Need recommendation for a virtual machine or linux cluster for ngs analysis
ngs
updated 15 hours ago by 38k • written 7.4 years ago by ▴ 220
3
votes
7
replies
221
views
What is the major problem with this pipeline of SNPs analysis?
Genomics Fungi SNP VCF
updated 18 hours ago by 38k • written 20 hours ago by • 0
3
votes
7
replies
296
views
Diffbind dba.count doesn't give FRiP score
Diffbind FRiP
updated 21 hours ago by ★ 1.7k • written 1 day ago by • 0
3
votes
4
replies
4.8k
views
How to visualize sequence quality control distribution
sequence Fastq R
updated 15 hours ago by 38k • written 7.4 years ago by ▴ 30
2
votes
2
replies
142
views
How to remove duplicate reads after ONT basecalling from fastq.gz files
fastq
15 hours ago by Darrenjdd • 0
2
votes
2
replies
167
views
Snakemake workflow for trimmomatic
snakemake
1 hour ago by antoine.fauchois92 • 0
2
votes
2
replies
1.0k
views
Forum: Tag autocompletion doesn't show all tags
meta biostars
updated 19 hours ago by 38k • written 7.4 years ago by 52k
2
votes
1
reply
1.4k
views
ensemble illumina tissues aligned rnaSeq
alignment RNA-Seq gene ISOFORM
updated 15 hours ago by 38k • written 7.4 years ago by ▴ 10
2
votes
0
replies
1.5k
views
Job: Bioinformatics Specialist at the Center for Personalized Diagnostics, University of Pennsylvania, USA
bioinformatician
updated 19 hours ago by 38k • written 7.4 years ago by ▴ 30
1
vote
1
reply
116
views
My keys are all ENSEMBL, but R says they are not valid keys for ENSEMBL
R ENSEMBL DESeq2
updated 11 hours ago by 127k • written 12 hours ago by • 0
1
vote
0
replies
2.0k
views
Job: Applications Architect - Children's Hospital Los Angeles
NGS Exome Personalized-Medicine NoSQL
updated 19 hours ago by 38k • written 7.4 years ago by ▴ 10
1
vote
6
replies
1.7k
views
Data Retrival from GenBank
NCBI
updated 19 hours ago by 38k • written 7.4 years ago by • 0
1
vote
1
reply
4.2k
views
How to Determine the Most Conserved Sequence from BLAST Result?
blast sequence-alignment
updated 15 hours ago by 38k • written 7.4 years ago by ▴ 30
1
vote
7
replies
2.4k
views
Forum: Bioinformatics & Virology or Immunology.
immunology virology
updated 15 hours ago by 38k • written 7.4 years ago by • 0
1
vote
3
replies
1.5k
views
How to get aligned protein data from DNA sequences.
protein alignment DNA
updated 15 hours ago by 38k • written 7.4 years ago by • 0
1
vote
4
replies
311
views
Snakemake doesn't recognize output files even though they are created
python Snakemake
12 hours ago by DdogBoss • 0
1
vote
7
replies
480
views
Dependent p values
pvalue snp Gene
2 hours ago by Eliza ▴ 20
1
vote
4
replies
367
views
SKAT in R
pvalue skat snp
52 minutes ago by Eliza ▴ 20
0
votes
2
replies
3.4k
views
Interproscan nucleotide sequence scanning
software-error sequence
updated 17 hours ago by 38k • written 7.4 years ago by ▴ 230
0
votes
0
replies
2.1k
views
Job: Director of Bioinformatics Products (Bozeman MT)
next-generation-sequencing clinical-informatics
updated 19 hours ago by 38k • written 7.4 years ago by • 0
0
votes
4
replies
2.0k
views
Please could someone explain multiple sequence aligning?
alignment sequence
updated 19 hours ago by 38k • written 7.4 years ago by • 0
0
votes
0
replies
1.0k
views
Getting started with miRNA prediction
miRNA
updated 19 hours ago by 38k • written 7.4 years ago by ▴ 10
0
votes
7
replies
329
views
syntax errors when running part3 all-against-all
oma
updated 20 hours ago by 38k • written 3 days ago by • 0
0
votes
1
reply
1.4k
views
TMREC(Transcription factor and miRNA regulatory cascade in human diseases) database
transcription-factors database
updated 15 hours ago by 38k • written 7.4 years ago by • 0
0
votes
0
replies
80
views
Job: PhD project: Analysis Of Genomics And Epigenomics Data In Mice And Humans To Clarify The Identity Of Plasmacytoid Dendritic Cells And Their Physiolog…
bioinformatics dendritic system cells immune multiomics
6 hours ago by aitor.gonzalez ▴ 30
0
votes
1
reply
107
views
""ERROR：States for individual 0 are zero " when I using GLIMPSE2 for Imputation
PBWT imputation gene GLIMPSE2
updated 20 hours ago by 2.6k • written 23 hours ago by • 0
0
votes
0
replies
133
views
Job: Scientific Data Manager - postdoc position at ULiège, BE
Research-Storage Scientific-Data-Management
updated 20 hours ago by 38k • written 1 day ago by • 0
0
votes
0
replies
7
views
How to find p-values for annotated methylated regions using methylkit and genomation
NGS bioinformatics pvalue annotation methylationarray
19 minutes ago by Saransh • 0
0
votes
3
replies
821
views
Problem to convert genotypes to plink format from bcftools
vcf bcftools ped plink beagle
updated 23 hours ago by ▴ 10 • written 22 months ago by ▴ 10
0
votes
1
reply
138
views
R package for functional enrichment and depletion analysis
enrichment depletion
updated 15 hours ago by 11k • written 18 hours ago by ★ 1.3k
0
votes
0
replies
90
views
HiC analysis in R
R HiC
updated 15 hours ago by 38k • written 16 hours ago by • 0
0
votes
0
replies
72
views
Seraut JackStrawplot PC1
jackstrawplot Seurat scRNAseq PCA
updated 20 hours ago by 38k • written 22 hours ago by • 0
0
votes
0
replies
1.9k
views
Job: PhD Studentships @ University of Glasgow [International students can also apply]
phd
updated 14 hours ago by 38k • written 7.3 years ago by ★ 1.8k
0
votes
0
replies
1.3k
views
Job: PhD Studentship in bioinformatics
next-gen RNA-Seq
updated 14 hours ago by 38k • written 7.3 years ago by • 0
0
votes
1
reply
194
views
how can we improve genome assembly levels ? from contig to complete using bioinformatics pipelines?
contig genome pipelines assembly
updated 22 hours ago by 4.6k • written 4 days ago by • 0
0
votes
1
reply
155
views
Difference between sratools and sratoolkit
sratools fastq sequencing sratoolkit sra
updated 22 hours ago by 127k • written 1 day ago by ▴ 10
63 results • Page 1 of 2
Recent Votes
Comment: My keys are all ENSEMBL, but R says they are not valid keys for ENSEMBL
Answer: How to remove duplicate reads after ONT basecalling from fastq.gz files
Talk from Aaron Lun on Orchestrating Single-Cell Analysis With Bioconductor
SSPACE for scaffolding
Answer: Snakemake workflow for trimmomatic
Answer: How to remove duplicate reads after ONT basecalling from fastq.gz files
A: Why Chip-seq data cross correlation plot has fragment_lenth cross correlation p
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Recent Replies
Comment: SKAT in R by Eliza ▴ 20
@acvill can you sujjest maybe pther tools , methods for this ? ( also for every SNP i have data how many patients had the hetro/homozygous…
Comment: TCGA-BRCA tissue and RNAseq problem by pinheirofabiano ▴ 10
Go to https://portal.gdc.cancer.gov > Exploration > select TCGA and the cancer type you want > select case ID to download the files and hav…
Answer: Snakemake workflow for trimmomatic by antoine.fauchois92 • 0
Thank you very much for your reply ! It's working now !
Comment: Dependent p values by Eliza ▴ 20
@lchart I'm sorry for asking another of questions but I'm new to this field , can you please explain a little more how to use SKAT , saige…
Comment: How to deal with the probe id mapping to multiple gene ids? by dare_devil ★ 1.7k
similar question [here][1], [here][2] and [here][3] [1]: https://support.bioconductor.org/p/54838/ [2]: https://support.bioconductor.…
Comment: How to deal with the probe id mapping to multiple gene ids? by dare_devil ★ 1.7k
@genomax I have used the same platform file only. If you look at probe id and their corresponding `Gene Symbol` or `ENTREZ_GENE_ID` you can…
Comment: How to deal with the probe id mapping to multiple gene ids? by GenoMax 127k
Where are you seeing this? [Platform file for this array][1] on GEO has these names uniquely assigned. [1]: https://www.ncbi.nlm.nih.go…
Comment: My keys are all ENSEMBL, but R says they are not valid keys for ENSEMBL by rpolicastro 11k
`Org.Mm.eg.db` is the mouse organism database, but your ENSEMBL IDs are for human genes. Mouse ensembl ids start with `ENSMUSG`. You proba…
Comment: Snakemake doesn't recognize output files even though they are created by DdogBoss • 0
Yes, it completed the dry run. What other information do you need?
Comment: LDSC correlation calculate confidence intervals by YL ▴ 10
Based on my personal thought, I think the se from LDSC output probably needs to be transferred using Delta method based on Fisher transform…
Comment: LDSC correlation calculate confidence intervals by YL ▴ 10
Hi, Are you able to find an answer for this? I have the exact question! YL
Answer: Gene duplicate by ATpoint 71k
Use use ensembID_geneName as gene identifier to avoid that. These duplicate names exist as genes so removing them is somewhat not really da…
Comment: Gene duplicate by Ram 38k
> some Ensembl IDs that are the same Please show us some examples.
Comment: R package for functional enrichment and depletion analysis by rpolicastro 11k
What you're describing is a simulation of the hypergeometric test, so if you want an exact solution you could use the function `fora` from …
Comment: How to remove duplicate reads after ONT basecalling from fastq.gz files by Darrenjdd • 0
Perfect! Thank you!
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