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1,000 results • Page
6 of 20
Sort: Votes
Rank
Views
Votes
Replies
72
votes
48
replies
8.5k
views
18 follow
What Kind Of Bioinformatics Tutorials Would You Like To See Online?
education
updated 15 months ago by
Ram
43k • written 13.1 years ago by
User 59
13k
72
votes
48
replies
18k
views
15 follow
Tutorial:
For Short Reads, Which Aligners Find All Hits Given Certain Edit Distance Threshold?
ngs
alignment
bwa
updated 14 months ago by
Ram
43k • written 11.3 years ago by
lh3
33k
72
votes
20
replies
88k
views
15 follow
How To Get Ensembl Id (Gene, Transcript, Protein) Mapping Information?
ensembl
identifiers
mapping
updated 16 months ago by
Ram
43k • written 13.5 years ago by
Unode
▴ 180
72
votes
28
replies
6.3k
views
10 follow
Forum:
Bioinformatics commercial services as a risk factor for scientific misconduct
commercial-services
ethics
misconduct
updated 22 months ago by
Ram
43k • written 9.3 years ago by
Angle45
▴ 90
72
votes
12
replies
4.3k
views
7 follow
Does Pre-Publishing Open Source Algorithms Hurt Chances Of Getting Published?
publication
algorithm
updated 21 months ago by
Ram
43k • written 12.7 years ago by
Martijn Van Iersel
▴ 570
72
votes
71
replies
31k
views
17 follow
Tool:
EnhancedVolcano: Publication-ready volcano plots with enhanced colouring and labeling
volcano-plot
bioconductor
ggplot2
ggrepel
updated 11 months ago by
Ram
43k • written 5.7 years ago by
Kevin Blighe
88k
72
votes
18
replies
56k
views
13 follow
Extracting Multiple Fasta Sequences At A Time From A File Containing Many Sequences
fasta
sequence
parsing
perl
updated 13.6 years ago by
Peter
6.0k • written 13.6 years ago by
Sarah
▴ 110
71
votes
15
replies
49k
views
10 follow
Definition of minor and major allele and connection with risk, effect, wildtype and reference allele
risk
minor
major
reference
alleles
written 6.1 years ago by
m98
▴ 420
71
votes
16
replies
91k
views
12 follow
What Does Samtools Flagstat Results Mean?
rna
samtools
mouse
updated 2.1 years ago by
Pierre Lindenbaum
161k • written 12.6 years ago by
Sakti
▴ 510
70
votes
19
replies
5.6k
views
13 follow
Forum:
Thrown Into A Bioinformatics Position
computational-analysis
updated 22 months ago by
Ram
43k • written 8.6 years ago by
System
▴ 170
70
votes
15
replies
16k
views
12 follow
Transcription Factor Enrichment
transcription
transcript
sequence
enrichment
updated 7.6 years ago by
jin
▴ 80 • written 13.6 years ago by
Dave Bridges
★ 1.4k
70
votes
33
replies
17k
views
18 follow
Choosing Random Set Of Seqs From Larger Set
random
fasta
updated 2.0 years ago by
Ram
43k • written 12.2 years ago by
razor
▴ 190
70
votes
29
replies
15k
views
13 follow
Tutorial:
Generating consensus sequence from bam file
fasta
consensus
bam
updated 8 weeks ago by
jkbonfield
★ 1.2k • written 5.2 years ago by
finswimmer
16k
70
votes
5
replies
11k
views
8 follow
Tutorial:
Bioinformatics For Metagenomic Analyses
QC
taxonomy
metagenomics
updated 2.1 years ago by
Ram
43k • written 10.1 years ago by
umer.zeeshan.ijaz
★ 1.8k
70
votes
12
replies
30k
views
8 follow
Drug to Target/Gene/Protein Interaction Databases
protein
target
database
drug
gene
updated 2.7 years ago by
Ram
43k • written 12.3 years ago by
Wayne
★ 1.0k
70
votes
16
replies
10k
views
11 follow
Creating A New Bioinformatics Unit
core
career
updated 15 months ago by
Ram
43k • written 12.9 years ago by
Israel Barrantes
▴ 790
69
votes
25
replies
7.1k
views
16 follow
How Do You Explain What You Do To The Guy On The Street Or Your Mum?
general
updated 6 months ago by
Ram
43k • written 14.2 years ago by
Dave Gerrard
▴ 190
69
votes
22
replies
40k
views
17 follow
Plotting Density Of Snps On Chromosomes
snp
snp
plot
updated 6.8 years ago by
kaixian110
• 0 • written 12.2 years ago by
Leszek
4.2k
69
votes
17
replies
39k
views
12 follow
Transform a GTF file into a data frame in R
R
RNA-Seq
GTF
updated 14 months ago by
Ram
43k • written 6.7 years ago by
biomagician
▴ 410
69
votes
13
replies
37k
views
8 follow
How Do People Go About Pubmed Text Mining
pubmed
text
updated 12.9 years ago by
Chris Evelo
10k • written 12.9 years ago by
Lyco
★ 2.3k
69
votes
39
replies
4.7k
views
14 follow
Forum:
Preparation for Bioinformatics.SE closing
meta
biostars
updated 12 months ago by
Ram
43k • written 7.0 years ago by
John
13k
68
votes
22
replies
8.0k
views
16 follow
Forum:
Learning Python: list of resources
python
updated 13 months ago by
Ram
43k • written 7.5 years ago by
dago
★ 2.8k
68
votes
23
replies
36k
views
16 follow
How Do I Do Simple Go Term Lookup Given A Gene (Or Mrna) Identifier?
gene
annotation
database
updated 3.1 years ago by
Ram
43k • written 14.0 years ago by
Ryan Thompson
★ 3.6k
68
votes
18
replies
131k
views
14 follow
from .BAM to .BAI using samtools
next-gen-sequencing
samtools
updated 3 months ago by
Pierre Lindenbaum
161k • written 9.6 years ago by
Kizuna
▴ 870
68
votes
6
replies
28k
views
8 follow
What Is A "Spot" In Sra Format
sra
fastq
format
updated 15 months ago by
Ram
43k • written 12.7 years ago by
Daniel Standage
4.1k
68
votes
40
replies
6.5k
views
11 follow
Can We Agree On A Short Twitter Hashtag For Nextgen Sequencing?
next-gen
sequencing
sequencing
updated 12.6 years ago by
pmenzel
▴ 310 • written 12.6 years ago by
Samuel Lampa
★ 1.3k
68
votes
25
replies
16k
views
12 follow
Tool:
sra-explorer : find SRA and FastQ download URLs in a couple of clicks
fastq
SRA
updated 6 months ago by
GenoMax
142k • written 5.2 years ago by
Phil Ewels
★ 1.4k
68
votes
18
replies
73k
views
17 follow
Project For A Beginner Bioinformatics Student
project
java
updated 22 months ago by
Ram
43k • written 12.5 years ago by
And
▴ 240
68
votes
48
replies
8.9k
views
16 follow
Forum:
Stranger Things: unexpected limitations of popular tools
samtools
hisat2
updated 12 months ago by
Ram
43k • written 6.8 years ago by
Istvan Albert
100k
68
votes
5
replies
22k
views
8 follow
Can someone please explain in simple terms how DESeq2 works?
DESeq2
updated 2.1 years ago by
Ram
43k • written 9.3 years ago by
BioStars1993
▴ 130
68
votes
23
replies
49k
views
8 follow
extract dendrogram cluster from pheatmap
R
updated 8 weeks ago by
Getnet Tesfaw
• 0 • written 6.4 years ago by
1769mkc
★ 1.2k
67
votes
17
replies
23k
views
15 follow
What Are The 'Copy Number Detection' Tools Out There For Exome Capture Ngs Data.
cnv
copynumber
next-gen
sequencing
variant
structural
updated 2.2 years ago by
Ram
43k • written 12.5 years ago by
Prateek
★ 1.0k
67
votes
40
replies
9.7k
views
12 follow
Forum:
I want to re-open the old debate: python or perl ?
perl
python
updated 2.2 years ago by
Ram
43k • written 9.5 years ago by
Gabriel R.
★ 2.9k
67
votes
15
replies
33k
views
14 follow
Rna-Seq Pipeline
pipeline
next-gen-sequencing
rna
rna-seq
updated 12 months ago by
Ram
43k • written 14.0 years ago by
brentp
24k
67
votes
21
replies
6.1k
views
8 follow
Forum:
Meta: Markdown in Biostars (now enabled)
meta
14 months ago by
Ram
43k
67
votes
9
replies
12k
views
Rna-Seq: Novel Transcripts Found. What Next?
rna-seq
updated 11.0 years ago by
Devon Ryan
104k • written 11.0 years ago by
jobinv
★ 1.1k
67
votes
13
replies
13k
views
12 follow
Good Books And Resources For Figuring Out Biostatistics?
statistics
books
updated 2.9 years ago by
Ram
43k • written 12.9 years ago by
Adamc
▴ 680
67
votes
6
replies
26k
views
7 follow
Tutorial:
Rna-Seq Review Papers
RNA-seq
papers
updated 14 months ago by
Ram
43k • written 11.7 years ago by
Istvan Albert
100k
66
votes
19
replies
51k
views
17 follow
Tool To Find Out If Fastq Is In Sanger Or Phred64 Encoding?
fastq
updated 11 months ago by
Ram
43k • written 11.3 years ago by
14134125465346445
★ 3.6k
66
votes
19
replies
23k
views
13 follow
Online Bioinformatics Training Options
training
updated 11.3 years ago by
parvan.zahra
• 0 • written 12.2 years ago by
John
★ 1.5k
66
votes
23
replies
11k
views
13 follow
How To Get Started In Bioinformatics?
books
updated 7.4 years ago by
jp
▴ 120 • written 14.2 years ago by
Oli
▴ 180
66
votes
25
replies
6.7k
views
13 follow
Data Selection With/Without Databases (Large Data Sets, Orms, And Speed)
database
python
data
updated 11.2 years ago by
kwete90
• 0 • written 13.1 years ago by
Sequencegeek
▴ 740
66
votes
10
replies
109k
views
6 follow
Fold change - a final explanation
RNA-Seq
updated 3.7 years ago by
naloy
▴ 10 • written 5.6 years ago by
Sebastian Hesse
▴ 340
66
votes
9
replies
111k
views
10 follow
Blog:
Gene expression units explained: RPM, RPKM, FPKM and TPM
gene-expression
RNA-Seq
updated 15 months ago by
Ram
43k • written 6.7 years ago by
Renesh
★ 2.2k
66
votes
23
replies
11k
views
9 follow
Using Hdf5 To Store Bio-Data
hdf5
storage
database
updated 7 months ago by
Ram
43k • written 14.2 years ago by
Pierre Lindenbaum
161k
66
votes
22
replies
24k
views
9 follow
Finding Gene Symbol Synonyms
annotation
updated 2.2 years ago by
Ram
43k • written 13.9 years ago by
Mike Dewar
★ 1.6k
66
votes
9
replies
49k
views
7 follow
Tutorial:
Reference Assembly - Mapping Reads To A Reference Genome
reference
samtools
mapping
bwa
updated 15 months ago by
Ram
43k • written 10.9 years ago by
Joseph Hughes
★ 3.0k
66
votes
43
replies
27k
views
23 follow
Ngs - Huge (Fastq) File Parsing - Which Language For Good Efficiency ?
next-gen
sequencing
parsing
fastq
programming
updated 2.3 years ago by
Ram
43k • written 13.3 years ago by
toni
★ 2.2k
66
votes
39
replies
7.5k
views
13 follow
What Do You Consider The Most Trivial And The Most Challenging Tasks In Your Particular Field Of Work?
career
subjective
updated 3.1 years ago by
Ram
43k • written 14.2 years ago by
Marcos De Carvalho
▴ 310
66
votes
8
replies
16k
views
7 follow
How Are Rna-Seq Transcripts Assigned?
rna
cufflinks
isoform
rna-seq
updated 9.8 years ago by
Malachi Griffith
20k • written 12.3 years ago by
Dave Bridges
★ 1.4k
1,000 results • Page
6 of 20
Recent Votes
Comment: How to calculate coverage of Nanopore long read data?
Comment: Overlapping Ranges within Granges object
Answer: Difference between Genotype 0|1 and 1|0 in VCF file?
Answer: how to keep reads in a fasta file based on a seq id list in R?
Answer: The total expressed genes in RNA-Seq data
C: Re-arrange conditions in Seurat
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Recent Replies
Comment: How to calculate coverage of Nanopore long read data?
by
Arton
• 0
Thank you! I eventually used the information generated by three tools (samtools coverage+ mosdepth + NanoPlot).
Comment: Alphaphold 3 pLDDT coloring scheme in chimerax?
by
mbrav005
• 0
Thank you Sir! you are right my model is not very good. Do You know how I can improve the scores. Also I am able to color the structure by …
Comment: Polish a large genome with Pilon
by
sansan_96
▴ 90
..........
Comment: Overlapping Ranges within Granges object
by
ntsopoul
▴ 60
you are on to something… if I use reduce to find the “overlaping regions” in a secon GRanges object, what do I do next?
Comment: Using ggplotly in R
by
jen
▴ 10
Thank you Jared for your response. I took a look at the documentation you provided and am trying my best to follow along, but can't seem to…
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred
by
Juke34
8.6k
Right I heard there is an issue since Perl v5.36. You may have better luck using conda. Or the best way is to use the container. Or downgra…
Answer: Alphaphold 3 pLDDT coloring scheme in chimerax?
by
Mensur Dlakic
★ 27k
pLDDT scores are stored in the so-called B-factor column in PDB files. Below the `File` ribbon select `Molecule Display` and click on `b-fa…
Comment: Genome Visualization Tools
by
dlera.lozano
▴ 10
Thank you so much
Answer: Doubt about the process of annotation, detection, identification and classificat
by
Mensur Dlakic
★ 27k
Depends on the context. `TE detection` and `TE identification` could mean the same thing if they refer to presence/absence of TEs. `TE iden…
Comment: featureCounts output summary assigned value higher than uniquely mapped reads fr
by
Ram
43k
Please accept your own answer to mark the post as solved.
Comment: RSeQC : infer_experiment.py Error: Could not retrieve index file
by
Ram
43k
A small educational note: if an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accep…
Comment: RSeQC : infer_experiment.py Error: Could not retrieve index file
by
Prawesh
• 0
thanks, it's working now.
Answer: Genome Visualization Tools
by
GenoMax
142k
@cmdcolin has a great list here: https://github.com/cmdcolin/awesome-genome-visualization
Answer: RSeQC : infer_experiment.py Error: Could not retrieve index file
by
Trivas
★ 1.8k
You need to have indexed your bam/sam file using `samtools index`
Answer: Using ggplotly in R
by
jared.andrews07
★ 16k
The simple answer is to plot it natively with plotly rather than use `ggplotly`. See [this stackoverflow answer](https://stackoverflow.com/…
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