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112,632 results • Page 4 of 2253
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93
votes
19
replies
57k
views
18 follow
What Is A Good Phylogenetic Tree Display Program For Large Data Sets?
phylogenetics-tree
updated 3 months ago by 40k • written 13.0 years ago by ★ 2.6k
93
votes
32
replies
31k
views
26 follow
Linux Distros Best Suited For Bioinformatics?
linux
written 11.7 years ago by ▴ 150
93
votes
6
replies
35k
views
In Sam Format, Clarify The Meaning Of The "0" Flag.
sam
updated 12.5 years ago by ★ 1.4k • written 12.5 years ago by ▴ 580
93
votes
21
replies
22k
views
13 follow
What Are The Advantages/Disadvantages Of One-Based Vs. Zero-Based Genome Coordinate Systems
coordinates genome
updated 8.8 years ago by 20 • written 12.5 years ago by 18k
93
votes
39
replies
142k
views
19 follow
Extract Reads From A Bam File That Fall Within A Given Region
bam
updated 5 months ago by ▴ 140 • written 11.2 years ago by ▴ 380
93
votes
50
replies
15k
views
17 follow
Forum: Fda Sends A Warning Letter To 23Andme - Personal Genomics Service Marketing To Be Discontinued
personal-genomics 23andMe
updated 6 months ago by 40k • written 9.8 years ago by 98k
92
votes
20
replies
27k
views
13 follow
Is There Any R Or R / Bioconductor Package That Can Make Circular Plots Like Perl / Circos
r visualization
updated 16 months ago by 40k • written 11.6 years ago by ★ 1.5k
92
votes
18
replies
63k
views
12 follow
Sequence length from Fasta
fasta
updated 9 months ago by 40k • written 8.9 years ago by ▴ 80
92
votes
46
replies
11k
views
28 follow
Best Language For Introductory Programming Course From Within An Introduction Course On Bioinformatics.
programming subjective
updated 7 months ago by 40k • written 12.2 years ago by 3.2k
91
votes
10
replies
106k
views
11 follow
Best Way To Do Pathway Analysis Of A Set Of Genes?
protein genes pathway analysis function
updated 11.5 years ago by ★ 2.6k • written 11.5 years ago by ★ 1.0k
91
votes
25
replies
60k
views
18 follow
Best Practices/Softwares To Calculate Ka/Ks Ratio
kaks selection software
updated 12 months ago by 53k • written 12.6 years ago by 3.4k
91
votes
20
replies
19k
views
15 follow
Forum: Publications for individualized medicine in cancer by whole genome, exome or transcriptome sequencing
N-of-one WGS RNA-Seq next-gen Exome
updated 11 months ago by 40k • written 9.4 years ago by 20k
90
votes
26
replies
37k
views
22 follow
Extracting Sequence From A 3Gb Fasta File
sequence retrieval fasta perl
updated 5.6 years ago by • 0 • written 13.3 years ago by ▴ 260
90
votes
16
replies
21k
views
15 follow
Are we tricking ourselves with batch effect correction?
combat batch-effect sva
updated 7 months ago by ▴ 20 • written 8.3 years ago by ★ 3.0k
90
votes
19
replies
31k
views
12 follow
Tutorial: Machine Learning For Cancer Classification - Part 1 - Preparing The Data Sets
microarray bioconductor expression classification
updated 6 months ago by 40k • written 9.9 years ago by 20k
90
votes
44
replies
59k
views
28 follow
Tool to generate proportional Venn Diagrams?
visualization
updated 17 months ago by 40k • written 12.4 years ago by ★ 3.4k
89
votes
21
replies
50k
views
13 follow
Should We Remove Duplicated Reads In Rna-Seq ?
rna-seq read
updated 9.8 years ago by ▴ 250 • written 10.9 years ago by ▴ 270
89
votes
31
replies
13k
views
23 follow
Best Graphics Gallery Or Blogs For Bioinformatics Use
graphs visualization genomics
updated 14 months ago by 40k • written 11.6 years ago by ★ 1.5k
89
votes
13
replies
20k
views
9 follow
What Do Different Bioinformatics Positions Mean?
career general
updated 7 months ago by 40k • written 13.5 years ago by ★ 1.6k
88
votes
52
replies
48k
views
16 follow
PCA plot from read count matrix from RNA-Seq
RNA-Seq pca
updated 22 months ago by ▴ 10 • written 5.9 years ago by ▴ 210
88
votes
36
replies
38k
views
15 follow
1000 Genomes Ld Calculation
genome linkage gwas
updated 9.6 years ago by ▴ 960 • written 13.0 years ago by ★ 3.4k
88
votes
24
replies
9.0k
views
14 follow
Project Euler Equivalent For Bioinformatics?
online
updated 6.6 years ago by 20 • written 13.2 years ago by ▴ 520
88
votes
32
replies
8.6k
views
11 follow
Forum: Vintage / unconventional pictures for Bioinformatics
history picture
updated 18 months ago by 40k • written 8.9 years ago by 157k
88
votes
24
replies
5.1k
views
10 follow
Forum: How To Be Helpful As A Biostar Moderator/Editor?
biostars
updated 7 months ago by 40k • written 10.6 years ago by 1.9k
87
votes
11
replies
18k
views
8 follow
Good Gwas Papers / Resources
gwas literature snp
updated 13.2 years ago by 16k • written 13.2 years ago by 24k
87
votes
25
replies
50k
views
21 follow
How To Split A Multiple Fasta
fasta split
updated 20 months ago by 40k • written 13.1 years ago by ▴ 470
87
votes
37
replies
49k
views
20 follow
Venn/Euler Diagram Of Four Or More Sets
r
updated 18 months ago by 40k • written 10.2 years ago by ▴ 110
86
votes
22
replies
80k
views
14 follow
Tutorial: How to Install SamTools, HTSLib, and BCFTools on Ubuntu 18.04
bcftools samtools htslib
updated 10 weeks ago by • 0 • written 5.2 years ago by ▴ 580
86
votes
29
replies
9.1k
views
9 follow
Forum: What is the future of EMBL-EBI (and European bioinformatics in general) in case of a 'Brexit'?
EU brexit EBI politics
updated 5 months ago by 40k • written 7.3 years ago by 53k
85
votes
16
replies
89k
views
9 follow
Number of mapped reads from BAM file
bam sam reads mapping
updated 10 months ago by ▴ 50 • written 8.5 years ago by ★ 2.7k
85
votes
52
replies
9.1k
views
31 follow
Which Application Is Truly Missing In Bioinformatics?
subjective general
updated 2.8 years ago by ▴ 130 • written 13.5 years ago by 3.4k
85
votes
19
replies
41k
views
17 follow
How To Assess The Quality Of An Assembly? (Is There No Magic Formula?)
assembly quality next-gen
updated 19 months ago by ▴ 10 • written 10.7 years ago by ▴ 470
85
votes
2
replies
56k
views
6 follow
Tutorial: How To Ask Good Questions On Technical And Scientific Forums
how-to
updated 6 months ago by 40k • written 10.2 years ago by 11k
84
votes
21
replies
18k
views
16 follow
Tutorial: Gene Set Enrichment Analysis
microarray enrichment RNA-Seq GSEA
updated 6 months ago by 40k • written 2.9 years ago by 3.0k
84
votes
12
replies
53k
views
9 follow
What are chimeric reads?
sequence
updated 20 months ago by 40k • written 8.9 years ago by ▴ 290
84
votes
29
replies
30k
views
20 follow
Tutorial: How to create a mutation landscape (waterfall) plot with GenVisR
BioConductor GenVisR Graphics R
updated 9 weeks ago by • 0 • written 7.5 years ago by 20k
84
votes
36
replies
18k
views
13 follow
Forum: Benchmark - Comparison of Different NGS Mappers
mRNA-Seq benchmark NGS-mapper
updated 18 months ago by 40k • written 8.7 years ago by 10k
84
votes
22
replies
4.0k
views
12 follow
Forum: is fortran still used in bioinformatics?
FORTRAN R
updated 6 months ago by 40k • written 4.3 years ago by ▴ 180
83
votes
34
replies
17k
views
22 follow
Tutorial: Enrichment Analysis, Clustering and Scoring with pathfindR
enrichment R pathway active-subnetwork
updated 4 months ago by • 0 • written 5.3 years ago by ★ 1.3k
83
votes
20
replies
18k
views
17 follow
How Do Pathway Databases Compare?
pathway database subjective
updated 9 weeks ago by ▴ 30 • written 12.9 years ago by ▴ 470
83
votes
30
replies
6.0k
views
18 follow
Forum: Optimal design for bioinformatics "lab" space?
design lab-space
updated 15 months ago by 40k • written 8.5 years ago by 18k
82
votes
32
replies
7.0k
views
13 follow
Forum: Shall We Go Back To Stackexchange?
meta
updated 7 months ago by 40k • written 10.8 years ago by ★ 3.6k
82
votes
43
replies
30k
views
26 follow
Tutorial: Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
fpkm rna-seq bioconductor
updated 3 months ago by ▴ 40 • written 9.9 years ago by ★ 7.7k
82
votes
13
replies
40k
views
7 follow
Ti/Tv Ratio Confirms Snp Discovery. Is This A General Rule?
snp snp
updated 3.1 years ago by 20 • written 12.7 years ago by ▴ 210
82
votes
11
replies
29k
views
10 follow
Qiime Vs Mothur : Why Use One Over The Other?
metagenomics
updated 7.0 years ago by • 0 • written 9.6 years ago by ▴ 370
82
votes
19
replies
12k
views
8 follow
Future Directions In Bioinformatics
subjective career
updated 7 months ago by 40k • written 12.9 years ago by ★ 1.5k
81
votes
8
replies
8.1k
views
6 follow
Tutorial: Current Topics in Genome Analysis 2014 (collection of educational lectures)
workshop lectures genomics training
updated 6 months ago by 40k • written 9.3 years ago by 19k
81
votes
15
replies
23k
views
10 follow
Vertebrate Subset Nr Database? Build My Own?
blast database
updated 9.3 years ago by • 0 • written 12.5 years ago by ▴ 430
81
votes
39
replies
6.6k
views
11 follow
News: State Of Biostar - Future Directions (January 2013)
biostars
updated 7 months ago by 40k • written 10.7 years ago by 98k
81
votes
26
replies
12k
views
17 follow
Appropriate Podcasts For A Bioinformatician?
subjective
updated 3.9 years ago by ▴ 720 • written 13.5 years ago by 13k
112,632 results • Page 4 of 2253
Recent Votes
Human Genomics Team Leader
Comment: Low Alignment rate
Answer: Filter transcription factors
Answer: Filter transcription factors
Answer: Filter transcription factors
Comment: Integrated Seurat object change name of the two conditions
Comment: Integrated Seurat object change name of the two conditions
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Recent Replies
Comment: I have performed Trimmomatic run for adapter removal. QC report shows drop in th by swbarnes2 13k
The library is non-existent? The reagents got fried? The instrument failed? All of those will affect the assembly processes in a profoun…
Answer: How to find the most representative protein data base ID for your protein? by GenoMax 134k
Option 1: Use MANE select proteins that you can download here (latest release as of today will keep changing) : https://ftp.ncbi.nlm.nih.g…
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool? by ATpoint 76k
Never tried, so idk. Why wouldn't it support it?
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool? by ATpoint 76k
I never tried conda images but since `mamba > conda` I guess mambaforge is better.
Comment: Filter human transcription factors by Chris ▴ 180
Thank you so much!
Comment: Filter human transcription factors by Chris ▴ 180
Yes, I do GO and GSEA to get pathway. I download the background gene at https://www.gsea-msigdb.org/gsea/msigdb/human/collections.jsp#C3 Th…
Answer: Visualize where kmers are on a reference genome by Alex Reynolds 35k
Make a bigBed file: https://www.biostars.org/p/9546293/ Then view it on the UCSC Genome Browser: http://genome.ucsc.edu/goldenPath/help/…
Comment: Integrated Seurat object change name of the two conditions by camillab. ▴ 130
great! thank you very much!
Answer: Filter transcription factors by jared.andrews07 ★ 15k
[This database](http://humantfs.ccbr.utoronto.ca/download.php) has been the best I've found.
Comment: Filter transcription factors by Ram 40k
What have you tried? Have you looked at GO annotations?
Comment: how to identify uniq genes between two gff files. by nikhil ▴ 10
yes @juke34 , I tried agat_sp_compare_two_annotations.pl for both gff files and got comparative output in table format. Thank you very muc…
Comment: Integrated Seurat object change name of the two conditions by Amitm ★ 2.2k
Yes, its similar structure. This snippet should add a new metadata column "sample.New" with what you want to do # Assuming a seurat obj. c…
Comment: Low Alignment rate by biofalconch ▴ 970
Yeap, you can sample your reads with `seqtk` like this: seqtk sample -s100 read2.fq 100 > Sample.fq Take a couple and run them throug…
Answer: obtaining circular RNAs' sequences from circBase by Barry Digby ★ 1.2k
You won't find them on circBase. circAtlas has the mature spliced sequence available. You can [search for circRNAs](https://ngdc.cncb.a…
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool? by Ram 40k
\#TIL mambaforge - better than continuum's conda images I'm guessing?
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