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1,000 results • Page
3 of 20
Sort: replies
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Votes
Replies
80
votes
34
replies
4.4k
views
11 follow
Forum:
Authorship issues- how to resolve?
authorship
updated 8 months ago by
Ram
40k • written 8.3 years ago by
datanerd
▴ 520
54
votes
34
replies
4.1k
views
13 follow
Forum:
Should We Release Database Dumps Of All Questions On Biostar?
meta
biostars
updated 7 months ago by
Ram
40k • written 12.8 years ago by
Istvan Albert
98k
31
votes
34
replies
6.5k
views
11 follow
Forum:
pros- and cons- : programming skills vs. GUI
programming
lecture
updated 5 months ago by
Ram
40k • written 7.8 years ago by
TriS
★ 4.7k
146
votes
34
replies
53k
views
17 follow
Tutorial:
Working with MAF files (Mutation Annotation Format) from the TCGA (The Cancer Genome Atlas)
music
cancer
tcga
mutation
maf
updated 7 months ago by
Ram
40k • written 10.4 years ago by
Cyriac Kandoth
6.0k
15
votes
34
replies
11k
views
Improving efficiency of awk for large files
awk
updated 11 months ago by
Ram
40k • written 8.2 years ago by
AW
▴ 350
27
votes
33
replies
3.2k
views
7 follow
Forum:
Biostars question catagories
statistics
biostars
meta
updated 5 months ago by
Ram
40k • written 6.9 years ago by
John
13k
10
votes
33
replies
3.1k
views
Looking for a tool like fastq screen but for ONT data
gridion
nanopore
ont
minion
updated 3 months ago by
Ram
40k • written 5.2 years ago by
Rox
★ 1.4k
120
votes
33
replies
37k
views
24 follow
Forum:
Where To Look For Quality Bioinformatics Short Courses And Workshops?
Courses
updated 4 months ago by
carlopecoraro2
★ 2.3k • written 10.1 years ago by
Eric Normandeau
11k
16
votes
33
replies
7.5k
views
9 follow
Back-filling missing genotypes in merged VCF
vcf
updated 9 months ago by
Pierre Lindenbaum
157k • written 8.9 years ago by
Katie D'Aco
★ 1.1k
134
votes
33
replies
59k
views
19 follow
VCF files: Change Chromosome Notation
vcf
next-gen
sequence
updated 11 months ago by
Ram
40k • written 9.4 years ago by
Quak
▴ 480
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
Ram
40k • written 9.9 years ago by
Obi Griffith
20k
99
votes
32
replies
105k
views
21 follow
How To Split A Bam File By Chromosome
bam
split
chromosome
updated 6 weeks ago by
ammar.husami
• 0 • written 11.3 years ago by
GPR
▴ 390
82
votes
32
replies
7.0k
views
13 follow
Forum:
Shall We Go Back To Stackexchange?
meta
updated 7 months ago by
Ram
40k • written 10.8 years ago by
14134125465346445
★ 3.6k
146
votes
31
replies
131k
views
26 follow
Useful Bash Commands To Handle Fasta Files
command-line
fasta
bash
updated 8 weeks ago by
Ram
40k • written 11.6 years ago by
Anima Mundi
★ 2.9k
28
votes
31
replies
5.1k
views
8 follow
Forum:
Biostar Ads Are Now Live. Feedback And Comments Are Sought.
biostars
updated 7 months ago by
Ram
40k • written 10.3 years ago by
Istvan Albert
98k
53
votes
31
replies
5.8k
views
15 follow
Biostar Flyer For Outreach
biostars
updated 7 months ago by
Ram
40k • written 12.9 years ago by
Mary
11k
13
votes
31
replies
5.7k
views
6 follow
Tutorial:
gene set filter/selection for training ab initio annotation tools
geneset
genome
gene
abinitio
updated 6 months ago by
Ram
40k • written 4.1 years ago by
Juke34
8.2k
38
votes
31
replies
2.3k
views
10 follow
Forum:
To the Biologists out there: What bioinf tool are you missing?
education
career
updated 5 months ago by
Ram
40k • written 7.2 years ago by
mschmid
▴ 180
59
votes
31
replies
4.1k
views
12 follow
News:
Example of how bioinformaticians can publish in Scientific Reports (by nature publishing group) using publicly available NGS data
publication
NGS
updated 5 months ago by
Ram
40k • written 6.7 years ago by
David Langenberger
10k
78
votes
31
replies
6.2k
views
14 follow
Forum:
Do Bad Questions Even Exist?
biostars
general
education
updated 7 months ago by
Ram
40k • written 12.6 years ago by
Chris Evelo
10k
18
votes
31
replies
7.1k
views
How can I easily remove overlapping transcripts, keeping only longest transcript, in a GFF file.
gff
parse
updated 6 months ago by
Juke34
8.2k • written 5.0 years ago by
a.rex
▴ 350
30
votes
31
replies
3.1k
views
11 follow
Forum:
I need your help to find my future
internship
masters
career
updated 5 months ago by
Ram
40k • written 7.2 years ago by
Baptiste
▴ 90
9
votes
31
replies
12k
views
6 follow
How to concatenate multiple fasta file
sequence
genome
updated 3 months ago by
doggie
• 0 • written 5.1 years ago by
fec2
▴ 40
34
votes
30
replies
2.3k
views
6 follow
Tool:
BioFlows - Container-enabled Bioinformatics pipeline engine
workflow
next-gen
RNA-Seq
pipeline
updated 6 months ago by
Ram
40k • written 2.8 years ago by
drsami
▴ 90
18
votes
30
replies
9.3k
views
6 follow
Tool:
Introducing FilterByTile: Remove Low-Quality Reads Without Adding Bias
Illumina
BBMap
filterbytile
updated 3 months ago by
Ram
40k • written 6.8 years ago by
Brian Bushnell
18k
47
votes
30
replies
3.7k
views
10 follow
Forum:
Bioinformatics software distribution
software
updated 4 months ago by
Ram
40k • written 6.5 years ago by
Petr Ponomarenko
★ 2.7k
53
votes
30
replies
12k
views
8 follow
How to get sample names and genotype for SNP in multi-sample VCF file
SNP
genotype
GATK
updated 5 months ago by
AMARU
• 0 • written 5.6 years ago by
hellbio
▴ 510
31
votes
30
replies
14k
views
6 follow
Tool:
BioVinci: user-friendly software to make plotting easy - PCA, 3D scatter plot, venn diagram, you name it.
gene
RNA-Seq
Venn-diagram
PCA
updated 3 months ago by
Ram
40k • written 5.4 years ago by
Jennifer Pham
▴ 450
102
votes
30
replies
60k
views
25 follow
Tools To Find Gene Ontology Term Enrichment
gene
enrichment
updated 3 months ago by
Ram
40k • written 13.6 years ago by
Biostar User
★ 1.0k
37
votes
30
replies
4.4k
views
7 follow
Forum:
Spam In Rss Feeds
meta
RSS
updated 7 months ago by
Ram
40k • written 10.7 years ago by
Madelaine Gogol
5.3k
61
votes
29
replies
6.9k
views
14 follow
Best bioinfo one-liners?
linux
updated 8 months ago by
Ram
40k • written 8.4 years ago by
Manu Prestat
4.1k
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
amziepickles
• 0 • written 7.5 years ago by
Obi Griffith
20k
73
votes
29
replies
3.8k
views
12 follow
Tool:
ChatGPT optimized for bioinformatics questions
gpt
11 weeks ago by
Sasha
▴ 720
64
votes
29
replies
15k
views
15 follow
Forum:
Fundamentals Of Designing Biological Databases?
database
updated 7 months ago by
Ram
40k • written 12.9 years ago by
anon1234z
▴ 130
33
votes
29
replies
19k
views
12 follow
Large File Transfers Of Ngs Data: Rsync / Bbcp / Unison / What?
data
updated 9 months ago by
Ram
40k • written 10.2 years ago by
Dan Sheppard
▴ 110
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
Ram
40k • written 7.3 years ago by
Michael
53k
273
votes
29
replies
266k
views
25 follow
How To Filter Mapped Reads With Samtools
samtools
updated 10 months ago by
Ram
40k • written 10.9 years ago by
sohadb1357
▴ 630
49
votes
28
replies
26k
views
12 follow
Trimming A Fastq File Representing Rna-Seq Data
fastq
RNA-seq
updated 6 months ago by
Ram
40k • written 11.5 years ago by
Varun Gupta
★ 1.3k
60
votes
28
replies
7.6k
views
27 follow
Forum:
Jim Robinson of the Integrative Genomics Viewer (IGV) uses this
uses-this
updated 6 months ago by
Ram
40k • written 9.0 years ago by
Istvan Albert
98k
63
votes
28
replies
3.4k
views
11 follow
Forum:
Bioinformatics analyses & errors: need for better post-publication tools?
next-gen
RNA-Seq
updated 5 months ago by
Ram
40k • written 7.4 years ago by
ablanchetcohen
★ 1.2k
19
votes
28
replies
14k
views
8 follow
Subsample BAM to fixed number of alignments
subsampling
bam
updated 9 months ago by
Ram
40k • written 8.3 years ago by
Daniel
★ 3.9k
33
votes
28
replies
11k
views
9 follow
Is There Any Reference Exome ?
exome
next-gen-sequencing
updated 9 months ago by
Ram
40k • written 12.5 years ago by
Khader Shameer
18k
2
votes
28
replies
1.1k
views
how do I generate frame 5 and 6 from the complementary strand?
python
updated 5 months ago by
Ram
40k • written 5 months ago by
kianamajd45
• 0
48
votes
28
replies
8.5k
views
9 follow
Tutorial:
How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
documentation
meta
how-to
4 months ago by
Ram
40k
18
votes
27
replies
18k
views
20 follow
Where Can I Download Vcf Files For Publicly Available Data?
vcf
snp
updated 6 months ago by
Ram
40k • written 11.8 years ago by
Kevin
▴ 640
65
votes
27
replies
6.7k
views
14 follow
Forum:
What is the reason for most software errors in Bioinformatics according to you?
software-error
blast
sequencing
SNP
R
updated 5 months ago by
Ram
40k • written 7.5 years ago by
harne.priyanka
▴ 110
197
votes
27
replies
32k
views
20 follow
Forum:
Bioinformatics Cartoon
bioinformatics
updated 11 weeks ago by
Ram
40k • written 11.7 years ago by
Maxime Lamontagne
★ 2.3k
42
votes
27
replies
4.8k
views
12 follow
What Do You Think Microsoft Biology Foundation?
updated 11 months ago by
Ram
40k • written 12.4 years ago by
Sirus
▴ 820
41
votes
27
replies
5.3k
views
8 follow
Forum:
Why bioinformaticians need to know programming languages?
Python
R
Programming
updated 4 months ago by
Ram
40k • written 6.3 years ago by
nilo
▴ 90
3
votes
27
replies
2.0k
views
7 follow
Forum:
What server do you use?
HPC
AWS
updated 4 months ago by
Ram
40k • written 5.2 years ago by
caggtaagtat
★ 1.8k
1,000 results • Page
3 of 20
Recent Votes
How to identify 16s sequences from binning data(contigs)?
geom_signif() uses t-test to compare between more than 3 groups... Isn't this wrong?
Answer: Filter transcription factors
Comment: Calculation of TMB on gene level
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool?
Comment: ATAC-seq troubleshoot - Just Noise
t2t human reference genome for RNA-seq
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gokberk
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edus_bioinfo
▴ 40
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Recent Replies
Comment: Violin plot (Monocle 3) - Troubleshooting
by
fracarb8
★ 1.2k
You did not add the screenshot.
Answer: BED files
by
Alex Reynolds
35k
Generically via `bedmap`: ``` bedmap --echo --echo-map --count exome.bed annotations.bed > answer.bed ``` The `annotations.bed` fil…
Comment: geom_signif() uses t-test to compare between more than 3 groups... Isn't this wr
by
dariober
14k
It seems to me that anova followed by HSD is a more sensible approach than applying independent t-tests. Granted this is the first time I s…
Comment: BED files
by
barslmn
★ 1.8k
I am guessing you want the annotation files. https://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/annotation/GRCh38_latest/refseq_identifiers/
Comment: Filter human transcription factors
by
Alex Reynolds
35k
Curious how redundant these TFs are. Jeff Vierstra has done some analysis on this to simplify model sets: https://www.vierstra.org/resource…
Comment: Read block operation failed with BAM file
by
Alex Reynolds
35k
https://github.com/samtools/htslib/pull/1676 patches a seek issue in `htslib` (upon which `samtools` and `pysam` depend)
Comment: Merging the filename with tsv files for master file
by
barslmn
★ 1.8k
Could you add samples from your files and your expected output.
Comment: Download an example of fully-imputed VCF files ?
by
barslmn
★ 1.8k
Check out the 1000 genomes project. https://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20130502/
Comment: obtaining circular RNAs' sequences from circBase
by
Barry Digby
★ 1.2k
Sorry my mistake! it’s been a minute since I’ve used these sites. Yes that it is common place, what is the goal of your analysis using th…
Comment: gene correlations in between two groups
by
ATpoint
76k
Use specialized software to analyse CRISPR/RNAi data, such as MAGeCK.
Comment: gene correlations in between two groups
by
edus_bioinfo
▴ 40
To be more clear, I have RNAi data from depmap with different cell lines and I separated them into two groups according to their EGFR mutat…
Comment: ATAC-seq troubleshoot - Just Noise
by
ATpoint
76k
You have reads, so sequencing is obviously fine. This is how the banding should look: https://kb.10xgenomics.com/hc/article_attachments/360…
Comment: Program for Overlapping DMRs (Differentially Methylated Regions) Between Groups
by
Basti
★ 1.7k
Do not use excel for bioinformatics purposes, using R you could use GRanges objects to find overlaps between your regions : https://www.bio…
Answer: Saving the output of LD pruning from SNPRelate package as a new GDS file
by
Patrick
• 0
Thank you James for the response; My problem is only if I want to use the output of LD pruning in a different software, like STRUCTURE (to …
Answer: Average Coverage after Assembly (Spades)
by
taniapsduarte
• 0
Hi, I'm running into the same issue. Did you make it work? Or did you find an alternative method? Thanks!
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