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1.2k
votes
206
replies
52k
views
108 follow
Forum: What Are The Most Common Stupid Mistakes In Bioinformatics?
software
updated 3 months ago by ★ 1.2k • written 12.5 years ago by 21k
762
votes
162
replies
123k
views
105 follow
News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 6 weeks ago by 2.0k • written 6.8 years ago by 98k
361
votes
58
replies
64k
views
44 follow
Forum: Recommend Your Favorite Bioinformatics Books
books education
written 13.6 years ago by 98k
360
votes
81
replies
139k
views
34 follow
Tool: Gnu Parallel - Parallelize Serial Command Line Programs Without Changing Them
parallel next-gen ngs
5 months ago by ole.tange ★ 4.3k
328
votes
54
replies
60k
views
45 follow
What Tools/Libraries Do You Use To Visualize Genomic Feature Data?
genome visualization
updated 12 months ago by 86k • written 13.5 years ago by 24k
327
votes
92
replies
226k
views
58 follow
Tools To Calculate Average Coverage For A Bam File?
coverage bam sequencing
updated 7 weeks ago by ▴ 180 • written 12.7 years ago by 4.9k
307
votes
65
replies
21k
views
48 follow
Forum: Your Favorite Bioinformatics Blogs (March 2010)
subjective
updated 12 months ago by 86k • written 13.6 years ago by 28k
298
votes
122
replies
28k
views
29 follow
Mean Length Of Fasta Sequences
code fasta sequence codegolf
updated 21 days ago by ▴ 270 • written 13.2 years ago by 11k
294
votes
27
replies
43k
views
33 follow
Forum: Up-to-date RNA-Seq Analysis Training/Courses/Papers (Dec 2017)
RNA-Seq sequencing papers
updated 14 months ago by 40k • written 7.7 years ago by ★ 2.4k
290
votes
55
replies
15k
views
41 follow
Forum: What Do You Waste Your Time On
scripting
updated 7 months ago by 40k • written 10.4 years ago by 10k
288
votes
33
replies
99k
views
25 follow
Tutorial: Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems
coordinates
updated 6 months ago by 40k • written 9.9 years ago by 20k
286
votes
64
replies
19k
views
44 follow
Forum: Bioinformatics "Cheat Sheet"
cheat sheet
updated 12 months ago by 86k • written 12.5 years ago by 22k
282
votes
39
replies
174k
views
29 follow
Tutorial: How to download raw sequence data from GEO/SRA
fastq SRA bam GEO
updated 6 months ago by 40k • written 9.1 years ago by 20k
279
votes
69
replies
19k
views
23 follow
Forum: Is Bioinformatics On Decline? Only In The Web, Or Also Within Institutions?
subjective
updated 7 months ago by 40k • written 12.2 years ago by ▴ 160
273
votes
29
replies
266k
views
25 follow
How To Filter Mapped Reads With Samtools
samtools
updated 10 months ago by 40k • written 10.9 years ago by ▴ 630
262
votes
48
replies
21k
views
37 follow
Forum: Bioinformatics courses, workshops or training
Workshop Training Courses
updated 7 months ago by ★ 1.0k • written 8.4 years ago by ★ 4.2k
251
votes
36
replies
32k
views
27 follow
Forum: How Do You Manage Your Files & Directories For Your Projects ?
project-management file-management
updated 6 months ago by 40k • written 13.4 years ago by 157k
244
votes
36
replies
8.5k
views
32 follow
Forum: Good Habit for Bioinformatics Analyst or Scientist
Analyst Scientist
updated 5 months ago by 40k • written 7.4 years ago by ★ 9.3k
238
votes
176
replies
88k
views
73 follow
Tutorial: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
RNA-Seq Survival TCGA
updated 4 months ago by 40k • written 8.2 years ago by ★ 4.7k
235
votes
45
replies
70k
views
34 follow
What Is The Best Pipeline For Human Whole Exome Sequencing?
next-gen sequencing illumina exome human
updated 12.3 years ago by ▴ 50 • written 13.3 years ago by 4.9k
229
votes
38
replies
140k
views
29 follow
Tool: Converting Genome Coordinates From One Genome Version To Another (Ucsc Liftover, Ncbi Remap, Ensembl Api)
ensembl genome-coordinates liftover
updated 3 months ago by 40k • written 10.6 years ago by 19k
226
votes
39
replies
284k
views
33 follow
Gene Id Conversion Tool
mapping conversion
updated 13 months ago by 40k • written 13.9 years ago by ▴ 620
206
votes
58
replies
39k
views
31 follow
Forum: Will Python Take The Place Of R?
r statistics python biopython
updated 7 months ago by 40k • written 10.4 years ago by 9.7k
203
votes
41
replies
24k
views
20 follow
Forum: Genomics is not Special. Computational Biologists are reinventing the wheel for big data biology analysis
genomics cram gatk galaxy
updated 7 months ago by 40k • written 8.9 years ago by ★ 5.2k
197
votes
27
replies
32k
views
20 follow
Forum: Bioinformatics Cartoon
bioinformatics
updated 11 weeks ago by 40k • written 11.7 years ago by ★ 2.3k
197
votes
21
replies
171k
views
12 follow
Forward And Reverse Strand Conventions
sequence strand
updated 10 months ago by 98k • written 12.9 years ago by ★ 2.8k
196
votes
44
replies
69k
views
33 follow
Tutorial: Analysing Microarray Data In Bioconductor
microarray-analysis bioconductor
updated 8 months ago by 40k • written 11.0 years ago by 20k
188
votes
50
replies
70k
views
41 follow
How To Remove The Same Sequences In The Fasta Files?
fasta sequence duplicates
updated 12 months ago by 40k • written 12.9 years ago by ▴ 340
188
votes
47
replies
1.7k
views
16 follow
Job: Bioinformatics freelancers needed
freelancer
updated 5 months ago by 40k • written 7.4 years ago by ▴ 190
185
votes
43
replies
80k
views
29 follow
Drawing Chromosome Ideograms With Data
chromosome visualization ideogram
updated 12 months ago by 40k • written 13.5 years ago by ★ 1.6k
185
votes
45
replies
30k
views
27 follow
How To Organize A Pipeline Of Small Scripts Together?
general pipeline
updated 2.0 years ago by 40k • written 13.6 years ago by 28k
179
votes
51
replies
16k
views
26 follow
I Am Preparing A Course On Ngs: Any Suggestion ?
next-gen sequencing galaxy
updated 10.2 years ago by ▴ 600 • written 12.9 years ago by 157k
173
votes
30
replies
90k
views
17 follow
What Is The Best Method To Find Orthologous Genes Of A Species?
orthologues
updated 20 months ago by 40k • written 12.5 years ago by ▴ 610
172
votes
34
replies
25k
views
29 follow
Recommend Your Favorite Introductory "R In Bioinformatics" Books And Resources
r bioconductor books
updated 8.9 years ago by ★ 1.6k • written 13.5 years ago by 53k
171
votes
26
replies
7.2k
views
12 follow
How Do You Acknowledge Biostar And Its Contributors In Your Research Output?
meta biostars
updated 7 months ago by 40k • written 12.6 years ago by 3.2k
170
votes
43
replies
17k
views
25 follow
Forum: Crac: Funny And/Or Weird Names For Bioinformatics Tools
humor
updated 5 months ago by 11k • written 10.5 years ago by 98k
170
votes
41
replies
91k
views
27 follow
Multiline Fasta To Single Line Fasta
fasta
updated 2 days ago by 40k • written 12.3 years ago by ▴ 250
164
votes
70
replies
57k
views
34 follow
How To Efficiently Parse A Huge Fastq File?
next-gen sequencing fastq parsing
updated 11.7 years ago by ▴ 430 • written 12.2 years ago by ★ 1.8k
163
votes
8
replies
165k
views
Generate vcf.gz file and its index file vcf.gz.tbi
vcf tabix
updated 14 months ago by 40k • written 10.8 years ago by ▴ 450
162
votes
64
replies
80k
views
39 follow
Selecting Random Pairs From Fastq?
random fastq illumina sequence
updated 6 days ago by ▴ 750 • written 12.5 years ago by 4.1k
161
votes
52
replies
122k
views
28 follow
Fastq Convert To Fasta
perl
9.9 years ago by biolab ★ 1.4k
160
votes
22
replies
17k
views
19 follow
Forum: Advice For Newcomers To The Bioinformatics Field
advice career
updated 10 months ago by 40k • written 10.2 years ago by 9.7k
158
votes
19
replies
38k
views
16 follow
Why Does Rna-Seq Read Count Fit Poisson Distribution?
rna-seq modeling
updated 21 months ago by 40k • written 9.9 years ago by ▴ 730
156
votes
24
replies
60k
views
19 follow
Recommended Tools For Alternative Splicing Detection From Rna-Seq Data
alternative-splicing splicing rna-seq
updated 3 months ago by 40k • written 10.6 years ago by 10k
155
votes
44
replies
30k
views
29 follow
Which Bioinformatic Friendly Pipeline Building Framework?
scripting
updated 15 months ago by 40k • written 9.7 years ago by ★ 2.1k
154
votes
17
replies
28k
views
13 follow
What Are The Big Questions That Bioinformatics And Computational Biology Will Be Answering In The Next Few Years?
updated 15 months ago by 40k • written 11.7 years ago by 26k
153
votes
27
replies
9.9k
views
21 follow
The Best Question To Ask In A Bioinformatics Seminar
subjective
updated 12.7 years ago by ★ 1.1k • written 12.8 years ago by 28k
153
votes
32
replies
7.6k
views
23 follow
Picking A Programming Language And Where To Begin
programming next-gen sequencing c subjective
updated 11.6 years ago by ▴ 60 • written 12.1 years ago by ★ 2.8k
151
votes
39
replies
23k
views
20 follow
Forum: A Farewell To Bioinformatics
bioinformatics
updated 7 months ago by 40k • written 10.7 years ago by 3.0k
151
votes
42
replies
177k
views
22 follow
How Do I Draw A Heatmap In R With Both A Color Key And Multiple Color Side Bars?
heatmap r
updated 16 months ago by 40k • written 11.6 years ago by 20k
1,000 results • Page 1 of 20
Recent Votes
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
Concatenating fastq.gz files across lanes
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Recent Replies
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?
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool? by arriyaz.nstu ▴ 30
If the laptop doesn't support WSL2, then will the Docker (with linux) work?
Comment: Integrated Seurat object change name of the two conditions by camillab. ▴ 130
thanks but my metadata looks different from yours. Will it work even there are not the same "structure"? or…
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