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1,000 results • Page 3 of 20
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88
votes
18
replies
58k
views
12 follow
Sequence length from Fasta
fasta
updated 3 months ago by 38k • written 8.4 years ago by ▴ 80
88
votes
24
replies
4.7k
views
10 follow
Forum: How To Be Helpful As A Biostar Moderator/Editor?
biostars
updated 6 weeks ago by 38k • written 10.1 years ago by 1.9k
87
votes
13
replies
19k
views
9 follow
What Do Different Bioinformatics Positions Mean?
career general
updated 7 weeks ago by 38k • written 13.0 years ago by ★ 1.6k
87
votes
16
replies
20k
views
15 follow
Are we tricking ourselves with batch effect correction?
combat batch-effect sva
updated 8 weeks ago by ▴ 20 • written 7.8 years ago by ★ 3.0k
84
votes
16
replies
84k
views
9 follow
Number of mapped reads from BAM file
bam sam reads mapping
updated 4 months ago by ▴ 50 • written 8.0 years ago by ★ 2.6k
84
votes
22
replies
3.5k
views
12 follow
Forum: is fortran still used in bioinformatics?
FORTRAN R
updated 22 days ago by 38k • written 3.8 years ago by ▴ 180
83
votes
34
replies
15k
views
21 follow
Tutorial: Enrichment Analysis, Clustering and Scoring with pathfindR
active-subnetwork enrichment pathway R
updated 22 days ago by 38k • written 4.8 years ago by ★ 1.3k
83
votes
30
replies
5.5k
views
18 follow
Forum: Optimal design for bioinformatics "lab" space?
design lab-space
updated 9 months ago by 38k • written 8.0 years ago by 18k
82
votes
21
replies
15k
views
16 follow
Tutorial: Gene Set Enrichment Analysis
microarray enrichment RNA-Seq GSEA
updated 22 days ago by 38k • written 2.5 years ago by 2.9k
82
votes
28
replies
28k
views
19 follow
Tutorial: How to create a mutation landscape (waterfall) plot with GenVisR
BioConductor GenVisR Graphics R
updated 7 weeks ago by 38k • written 7.1 years ago by 20k
82
votes
19
replies
12k
views
8 follow
Future Directions In Bioinformatics
subjective career
updated 6 weeks ago by 38k • written 12.4 years ago by ★ 1.5k
82
votes
21
replies
71k
views
13 follow
Tutorial: How to Install SamTools, HTSLib, and BCFTools on Ubuntu 18.04
bcftools samtools htslib
updated 6 weeks ago by ★ 2.9k • written 4.7 years ago by ▴ 540
82
votes
32
replies
6.5k
views
13 follow
Forum: Shall We Go Back To Stackexchange?
meta
updated 5 weeks ago by 38k • written 10.4 years ago by ★ 3.6k
81
votes
8
replies
7.8k
views
6 follow
Tutorial: Current Topics in Genome Analysis 2014 (collection of educational lectures)
workshop lectures genomics training
updated 25 days ago by 38k • written 8.8 years ago by 19k
81
votes
39
replies
6.0k
views
11 follow
News: State Of Biostar - Future Directions (January 2013)
biostars
updated 6 weeks ago by 38k • written 10.2 years ago by 97k
81
votes
23
replies
11k
views
10 follow
Transform A Pipeline Of R Scripts Into A Web Application
webservice web pipeline galaxy
updated 11 months ago by 38k • written 12.7 years ago by 27k
81
votes
21
replies
4.1k
views
16 follow
Forum: [UPDATE] Thrown into a Bioinformatics Position
bioinformatics
updated 14 days ago by 38k • written 6.8 years ago by ★ 3.2k
80
votes
34
replies
3.9k
views
11 follow
Forum: Authorship issues- how to resolve?
authorship
updated 12 weeks ago by 38k • written 7.8 years ago by ▴ 520
80
votes
23
replies
4.3k
views
11 follow
Forum: Are we facing a bioinformatician shortage?
salary career
updated 22 days ago by 38k • written 8.4 years ago by ★ 3.0k
80
votes
2
replies
53k
views
Tutorial: How To Ask Good Questions On Technical And Scientific Forums
how-to
updated 4 weeks ago by 38k • written 9.8 years ago by 11k
79
votes
22
replies
81k
views
16 follow
How To Split One Big Sequence File Into Multiple Files With Less Than 1000 Sequences In A Single File
next-gen sequencing fasta rna r perl
updated 4 months ago by 38k • written 11.5 years ago by ▴ 290
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 14 hours ago by 38k • written 7.4 years ago by ▴ 650
78
votes
31
replies
5.7k
views
14 follow
Forum: Do Bad Questions Even Exist?
biostars general education
updated 6 weeks ago by 38k • written 12.1 years ago by 10k
78
votes
41
replies
28k
views
24 follow
Tutorial: Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
fpkm rna-seq bioconductor
updated 4 months ago by • 0 • written 9.5 years ago by ★ 7.7k
77
votes
8
replies
12k
views
13 follow
Which program, tool, or strategy do you use to visualize genomic rearrangements?
fusion-genes visualizations rearrangements
updated 6 months ago by 38k • written 7.5 years ago by ★ 1.1k
77
votes
27
replies
49k
views
20 follow
How To Write Data In A Granges Object To A Bed File.
bed
updated 7 months ago by ▴ 70 • written 9.3 years ago by ▴ 180
77
votes
18
replies
43k
views
13 follow
Bioinformaticist Vs. Bioinformatician
subjective
updated 8 months ago by • 0 • written 12.9 years ago by ★ 1.1k
77
votes
22
replies
21k
views
14 follow
Assessing The Quality Of De Novo Assembled Data
assembly next-gen
updated 6 months ago by 38k • written 10.8 years ago by ★ 2.6k
76
votes
86
replies
25k
views
20 follow
Tool: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remove duplicates.
compression bbmap clumpify pigz storage Tool
updated 3 months ago by 127k • written 6.3 years ago by 18k
75
votes
70
replies
16k
views
18 follow
Tutorial: Clustering of DAVID gene enrichment results from gene expression studies
enrichment david
updated 17 days ago by 38k • written 5.1 years ago by 85k
75
votes
14
replies
11k
views
10 follow
Tool: karyoploteR: uncircle your genomes
R Tool dataviz karyoploteR NGS
updated 11 months ago by • 0 • written 5.8 years ago by ★ 3.4k
75
votes
22
replies
49k
views
17 follow
How To Download All Sra Samples At Once ?
geo sra
updated 8 days ago by 38k • written 9.1 years ago by ★ 1.5k
74
votes
24
replies
52k
views
16 follow
How To Sort Bed Format File
bed
updated 5 months ago by 153k • written 10.1 years ago by ▴ 430
74
votes
13
replies
65k
views
10 follow
Tutorial: Machine Learning For Prediction of Relapse in Cancer - Part 2 - Building A Random Forest Classifier
r cancer classification
updated 5 months ago by 38k • written 9.4 years ago by ★ 1.2k
74
votes
14
replies
28k
views
12 follow
Forum: Bioinformatics Consulting Thoughts
consulting
updated 9 months ago by 38k • written 12.8 years ago by 4.5k
73
votes
25
replies
98k
views
14 follow
How to count fastq reads
sequence next-gen fastq reads
updated 9 months ago by 38k • written 7.9 years ago by ▴ 250
73
votes
14
replies
14k
views
15 follow
Tutorial: List Of Bioinformatics Books
books
updated 7 weeks ago by 38k • written 9.9 years ago by 9.5k
72
votes
18
replies
6.7k
views
17 follow
Forum: What Is One Book Every Bioinformatician Should Read?
books
updated 4 weeks ago by 38k • written 9.8 years ago by 7.7k
72
votes
20
replies
24k
views
11 follow
Parsing Ncbi Taxonomic Tree?
ncbi taxonomy python tree
updated 3 months ago by 38k • written 11.4 years ago by ▴ 350
72
votes
60
replies
23k
views
16 follow
Tutorial: Produce PCA bi-plot for 1000 Genomes Phase III in VCF format (old)
1000genomes PLINK PCA VCF
updated 7 weeks ago by 38k • written 5.6 years ago by 85k
72
votes
48
replies
15k
views
15 follow
Tutorial: For Short Reads, Which Aligners Find All Hits Given Certain Edit Distance Threshold?
ngs alignment bwa
updated 5 weeks ago by 38k • written 10.1 years ago by 33k
72
votes
28
replies
5.2k
views
10 follow
Forum: Bioinformatics commercial services as a risk factor for scientific misconduct
commercial-services ethics misconduct
updated 9 months ago by 38k • written 8.2 years ago by ▴ 90
72
votes
12
replies
3.7k
views
7 follow
Does Pre-Publishing Open Source Algorithms Hurt Chances Of Getting Published?
publication algorithm
updated 8 months ago by 38k • written 11.6 years ago by ▴ 570
72
votes
48
replies
6.9k
views
18 follow
What Kind Of Bioinformatics Tutorials Would You Like To See Online?
education
updated 6 weeks ago by 38k • written 12.0 years ago by 13k
71
votes
71
replies
24k
views
17 follow
Tool: EnhancedVolcano: Publication-ready volcano plots with enhanced colouring and labeling
volcano plot ggplot2 ggrepel bioconductor Tool
updated 5 months ago by ▴ 40 • written 4.6 years ago by 85k
71
votes
17
replies
31k
views
14 follow
How to know that your RNA-seq is stranded or not?
RNA-Seq
updated 10 weeks ago by ★ 2.9k • written 8.9 years ago by ▴ 600
70
votes
19
replies
4.6k
views
13 follow
Forum: Thrown Into A Bioinformatics Position
computational-analysis
updated 8 months ago by 38k • written 7.5 years ago by ▴ 170
70
votes
20
replies
80k
views
15 follow
How To Get Ensembl Id (Gene, Transcript, Protein) Mapping Information?
ensembl identifiers mapping
updated 12 weeks ago by 38k • written 12.4 years ago by ▴ 180
70
votes
31
replies
25k
views
10 follow
Illumina Instrument Type from fastq?
fastq
updated 7 months ago by 127k • written 6.8 years ago by 6.5k
70
votes
16
replies
8.9k
views
11 follow
Creating A New Bioinformatics Unit
core career
updated 6 weeks ago by 38k • written 11.8 years ago by ▴ 790
1,000 results • Page 3 of 20
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: 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!
Comment: Why Chip-seq data cross correlation plot has fragment_lenth cross correlation p by Daniel • 0
Hi, I am wondering if you ever got an answer for this question. Also, I am curious why it is true that "All the reads coming from one end…
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