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1.1k
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186
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35k
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103 follow
Forum: What Are The Most Common Stupid Mistakes In Bioinformatics?
software Forum
updated 10 months ago by 10k • written 10.0 years ago by 20k
201
votes
55
replies
35k
views
30 follow
Forum: Will Python Take The Place Of R?
r python biopython statistics Forum
updated 3.4 years ago by 9.2k • written 7.9 years ago by 8.9k
274
votes
26
replies
34k
views
31 follow
Forum: Up-to-date RNA-Seq Analysis Training/Courses/Papers (Dec 2017)
RNA-Seq sequencing Forum papers Tutorial
3.4 years ago by CandiceChuDVM ★ 2.2k
119
votes
45
replies
33k
views
19 follow
Forum: Visualization of ChIP-seq data using Heatmaps (Updated: 06/10/16)
ChIP-Seq visualization deeptools ngsplot homer Forum
updated 15 months ago by ▴ 230 • written 5.1 years ago by ★ 3.1k
113
votes
31
replies
31k
views
23 follow
Forum: Where To Look For Quality Bioinformatics Short Courses And Workshops?
bioinformatics Forum
updated 2.2 years ago by • 0 • written 7.6 years ago by 11k
40
votes
17
replies
31k
views
15 follow
Forum: List Of Genome Sequencing Centers/Institutes
genomics bioinformatics Forum institutes
updated 22 months ago by 72k • written 8.1 years ago by 18k
20
votes
11
replies
31k
views
Forum: When To Use Sed Awk Over Perl Or Python
awk perl python Forum
updated 7.3 years ago by ★ 1.9k • written 7.3 years ago by 8.9k
21
votes
3
replies
29k
views
Forum: Did You Know That Researchgate Is Spamming Your Colleagues (Perhaps Without Your Explicit Consent)?
Forum
updated 8.2 years ago by 87k • written 8.2 years ago by 19k
44
votes
12
replies
25k
views
6 follow
Forum: BWA vs Bowtie 2 (Poll)
BWA Bowtie 2 Poll Forum
updated 6.1 years ago by 87k • written 6.1 years ago by ▴ 260
55
votes
19
replies
23k
views
6 follow
Forum: Attention: Bowtie2 And Multiple Hits
bowtie next-gen mapping Forum
updated 8.5 years ago by ▴ 150 • written 8.5 years ago by 9.6k
95
votes
34
replies
21k
views
18 follow
Forum: Snakemake vs. Nextflow: strengths and weaknesses
snakemake nextflow Forum
updated 20 months ago by ★ 8.6k • written 3.8 years ago by ▴ 710
99
votes
36
replies
21k
views
30 follow
Forum: List of cloud genomics companies
cloud genomics Forum
updated 3 months ago by • 0 • written 7.4 years ago by ★ 3.5k
10
votes
2
replies
21k
views
Forum: BWA command guide
BWA Page
updated 8 months ago by ▴ 50 • written 3.1 years ago by ★ 1.0k
202
votes
41
replies
21k
views
20 follow
Forum: Genomics is not Special. Computational Biologists are reinventing the wheel for big data biology analysis
genomics Forum cram gatk galaxy
updated 6.4 years ago by 87k • written 6.4 years ago by ★ 4.8k
121
votes
44
replies
21k
views
16 follow
Forum: Trimming adapter sequences - is it necessary?
RNA-Seq NGS adapter Forum
written 4.6 years ago by ▴ 780
148
votes
39
replies
19k
views
20 follow
Forum: A Farewell To Bioinformatics
bioinformatics Forum
updated 3.5 years ago by 72k • written 8.2 years ago by 3.0k
135
votes
41
replies
18k
views
20 follow
Forum: Are We Rude/Do We Expect Too Much From People Asking Questions On This Forum?
Forum
updated 7.5 years ago by ★ 1.1k • written 7.9 years ago by ★ 1.5k
91
votes
20
replies
17k
views
15 follow
Forum: Publications for individualized medicine in cancer by whole genome, exome or transcriptome sequencing
RNA-Seq next-gen WGS Exome N-of-one Forum
3.6 years ago by Obi Griffith 19k
65
votes
26
replies
17k
views
13 follow
Forum: Macosx For Bioinformatics?
linux Forum
updated 7.4 years ago by 48k • written 7.4 years ago by 11k
89
votes
23
replies
17k
views
16 follow
Forum: How Did You Learn Good Practice In Bioinformatics/Computational Biology?
bioinformatics Forum
written 7.2 years ago by ▴ 490
255
votes
47
replies
17k
views
35 follow
Forum: Bioinformatics courses, workshops or training
Training Workshop Tutorial Courses Forum
2.9 years ago by Deepak Tanwar ★ 4.1k
279
votes
69
replies
15k
views
23 follow
Forum: Is Bioinformatics On Decline? Only In The Web, Or Also Within Institutions?
subjective Forum
updated 5.8 years ago by ▴ 10 • written 9.7 years ago by ▴ 160
156
votes
21
replies
14k
views
17 follow
Forum: Advice For Newcomers To The Bioinformatics Field
bioinformatics Forum
updated 2.8 years ago by • 0 • written 7.8 years ago by 8.9k
33
votes
5
replies
14k
views
9 follow
Forum: How do I explain to my non-bioinformatician labmates how to interpret principal components?
RNA-Seq pca analysis communication Forum
updated 3.0 years ago by 72k • written 5.3 years ago by ▴ 570
81
votes
34
replies
13k
views
11 follow
Forum: Benchmark - Comparison of Different NGS Mappers
mRNA-Seq benchmark NGS mapper News Forum
6.3 years ago by David Langenberger 9.6k
31
votes
13
replies
13k
views
8 follow
Forum: Should I Pursue A Bioinformatics Msc?
bioinformatics Forum
updated 8.2 years ago by ★ 4.0k • written 8.2 years ago by ▴ 70
36
votes
21
replies
13k
views
9 follow
Forum: What Is Your Favorite Conserved Protein?
protein conservation Forum
updated 7.6 years ago by ★ 1.1k • written 7.6 years ago by 11k
93
votes
50
replies
13k
views
17 follow
Forum: Fda Sends A Warning Letter To 23Andme - Personal Genomics Service Marketing To Be Discontinued
Forum
updated 7.4 years ago by ▴ 350 • written 7.4 years ago by 87k
19
votes
0
replies
12k
views
Forum: Hadley Wickham of ggplot and RStudio uses this
uses-this Forum
updated 23 days ago by 32k • written 6.5 years ago by 87k
61
votes
11
replies
12k
views
9 follow
Forum: Web Based Interactive Resources To Learn Programming And/Or Bioinformatics
programming Forum
updated 6.2 years ago by ★ 2.7k • written 7.8 years ago by 18k
48
votes
38
replies
12k
views
8 follow
Forum: Eukaryotic Genome Annotation in 2016
genome annotation software Forum
updated 5.1 years ago by ▴ 340 • written 5.1 years ago by 11k
64
votes
29
replies
12k
views
15 follow
Forum: Fundamentals Of Designing Biological Databases?
database tutorial Forum
updated 3.2 years ago by ▴ 150 • written 10.4 years ago by ▴ 130
41
votes
21
replies
12k
views
10 follow
Forum: A Database Of Signatures Of Selection In The 1000 Genomes Dataset
1000genomes selection human Forum
updated 4.8 years ago by • 0 • written 7.1 years ago by 27k
170
votes
88
replies
12k
views
23 follow
Forum: Petition to demand that the Federal German Government release all genomic data on SARS-COV-2
GISAID Forum
written 13 months ago by 87k
8
votes
2
replies
11k
views
Forum: List of popular bioinformatics software/tools
bioinformatic sofwares Forum
updated 6.5 years ago by 87k • written 6.5 years ago by ▴ 20
140
votes
38
replies
11k
views
20 follow
Forum: Crac: Funny And/Or Weird Names For Bioinformatics Tools
bioinformatics Forum humor
updated 5.5 years ago by • 0 • written 8.0 years ago by 87k
20
votes
22
replies
10k
views
11 follow
Forum: Nextseq for analysts
nextseq basespace casava bcl2fastq Forum
updated 6.5 years ago by ▴ 70 • written 6.8 years ago by 5.2k
281
votes
54
replies
10k
views
39 follow
Forum: What Do You Waste Your Time On
bioinformatics scripting Forum
updated 4 days ago by ▴ 170 • written 7.9 years ago by 8.6k
8
votes
9
replies
9.6k
views
6 follow
Forum: Open Source Bioinformatics projects for beginners
Begginers Bioinformatics Open Source Forum
updated 3.2 years ago by ★ 2.1k • written 3.2 years ago by ▴ 40
0
votes
0
replies
9.4k
views
Forum: Characteristics Analysis of Biotechnology Industry
biotechnology industry Page
6.0 years ago by vera.anderson2015 • 0
105
votes
46
replies
9.3k
views
13 follow
Forum: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
Forum
written 7.6 years ago by ★ 1.1k
60
votes
70
replies
9.1k
views
21 follow
Forum: Biostar 2.0 released
biostar Forum
updated 12 days ago by 32k • written 7.0 years ago by 87k
31
votes
13
replies
9.0k
views
10 follow
Forum: What Skills Do You Have To Have As A Phd Graduate In Bioinformatics?
phd bioinformatics genomics Forum
updated 6.0 years ago by ▴ 60 • written 8.7 years ago by ▴ 640
7
votes
9
replies
8.7k
views
Forum: How to calculate FPKM values of interested gene
RNA-Seq FPKM cufflinks bowtie2 Forum
updated 6.8 years ago by 8.0k • written 6.8 years ago by ▴ 130
56
votes
43
replies
8.6k
views
8 follow
Forum: Best RNA-Seq aligner: A comparison of mapping tools
RNA-Seq NGS alignment genome sequence Forum
updated 9 weeks ago by ▴ 20 • written 2.2 years ago by 9.6k
12
votes
6
replies
8.6k
views
Forum: Looking for opinions on PhD programs in Genetics and Genomics/Bioinformatics
PhD Genomics Forum
updated 6.4 years ago by 7.2k • written 6.4 years ago by ▴ 110
0
votes
2
replies
8.6k
views
Forum: Secondary Structure Prediction software RNA/DNA
secondary structure dna rna software Forum
updated 6.4 years ago by ★ 2.1k • written 6.4 years ago by ★ 3.5k
57
votes
14
replies
8.4k
views
14 follow
Forum: Interesting bioinformatics blogs (2017 edition)
blogs Forum
updated 2.8 years ago by ▴ 570 • written 4.1 years ago by 45k
50
votes
8
replies
8.3k
views
6 follow
Forum: Encode Commentary From Dan Graur
encode Forum
updated 8.1 years ago by 11k • written 8.1 years ago by 16k
44
votes
19
replies
8.1k
views
10 follow
Forum: Is Software Development a key part of Bioinformatics?
Software Development Bioinformatics Forum
written 6.3 years ago by ▴ 50
1,338 results • Page 1 of 27
Recent Votes
Comment: A simple tutorial for a complex ComplexHeatmap
Answer: Hunting invisible characters?
BWA error: no ID within the read group line
Answer: differential expression analysis
Answer: How to verify putative miRNA
Comment: How to make consensus sequence from aligned reads ?
Answer: GSEA for RNA_seq dataset
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Recent Replies
Comment: How can I Extract Transposable element from a new genome assembly? by GenoMax 99k
Align your assemblies to each other using an aligner like `lastz` ([**LINK**][1]). You could also use `blat` if you are sure the assemblies…
Comment: Trimmomatic-0.36 not finding adapter directory by GenoMax 99k
It is going to take as long as it takes. You need to be patient and wait until the prompt returns. Based on speed of your CPU/disk things c…
Comment: Hunting invisible characters? by GenoMax 99k
You could have looked at the file using `cat -vet` which would have shown all characters in the file. Printable and non.
Comment: Can't count features with featurecount by avelarbio46 ▴ 10
I'm not sure about three things: What does -M and -O do exactly that could benefit in my case? Why should I specify -t if I don't necessa…
Comment: Hunting invisible characters? by geneticatt ▴ 120
Thank you, using `dos2unix` worked perfectly!
Answer: Hunting invisible characters? by Mensur Dlakic ★ 10k
You may want to read [**this**][1]. I think you may be able to fix your adaper file by typing: dos2unix i5R.txt If an error pops …
Comment: RNA seq analysis; two samples by Ram 32k
Please do not delete posts that have comments/answers.
Comment: ICE normalization using JuicerTools by sckinta ▴ 610
Is there a way to extract ICE bias from balanced .cool file? I know that you can find weight associated with each bin by `cooler dump --bal…
Comment: How to verify putative miRNA by boczniak767 ▴ 740
Yeah, miRNA could be only verified in wet-lab. Take a look at [stem-loop PCR][1]. I've used it and it works really well. [1]: https://j…
Comment: R - A bioinformatic analysis programming language for NGS by Ram 32k
Because this is a plain copy-paste from the novogene page, it has numbers (pointers to specific references that the source has), but not th…
Comment: X amino acid in ensembl by Mensur Dlakic ★ 10k
This is correct. `X` means any amino acid. Most substitution matrices apply identical penalty (`-1`) when any amino-acid is aligned with X …
Answer: differential expression analysis by Mensur Dlakic ★ 10k
I think the numbers you cite are the most extreme values that people will still accept. In most cases I would go for lower p-values (at lea…
Comment: Trimmomatic-0.36 not finding adapter directory by willbrown • 0
The two reads are roughly 23GB each, the only other large output file generated in my last attempt was the trimlog file, which was only 1.5…
Comment: A simple tutorial for a complex ComplexHeatmap by ATpoint 48k
You always normalize data before z-scoring it. The Z-score just calculate like the "deviation" of every sample from the mean of all samples…
Answer: GSEA for RNA_seq dataset by ATpoint 48k
I tried to explain my understanding of (f)GSEA and why one should use all (expressed) genes here over at this Bioc post: https://support…
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