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1,000 results • Page
3 of 20
Sort: replies
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Votes
Replies
42
votes
33
replies
6.8k
views
8 follow
Tutorial:
How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
meta
how-to
documentation
13 days ago by
Ram
38k
68
votes
33
replies
15k
views
18 follow
Choosing Random Set Of Seqs From Larger Set
random
fasta
updated 10 months ago by
Ram
38k • written 11.0 years ago by
razor
▴ 190
274
votes
33
replies
92k
views
25 follow
Tutorial:
Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems
coordinates
updated 27 days ago by
Ram
38k • written 9.4 years ago by
Obi Griffith
20k
127
votes
33
replies
53k
views
19 follow
VCF files: Change Chromosome Notation
vcf
next-gen
sequence
updated 5 months ago by
Ram
38k • written 8.9 years ago by
Quak
▴ 480
12
votes
33
replies
6.6k
views
9 follow
Back-filling missing genotypes in merged VCF
vcf
updated 3 months ago by
Pierre Lindenbaum
153k • written 8.4 years ago by
Katie D'Aco
★ 1.0k
129
votes
32
replies
122k
views
29 follow
Is There A Free Alternative To Ingenuity Pathway Analysis?
network
pathway
updated 11 months ago by
Ram
38k • written 12.1 years ago by
Gon
▴ 530
53
votes
32
replies
11k
views
13 follow
Bio-Javascript?
updated 11 months ago by
Ram
38k • written 12.1 years ago by
Lee Katz
★ 3.1k
82
votes
32
replies
6.4k
views
13 follow
Forum:
Shall We Go Back To Stackexchange?
meta
updated 4 weeks ago by
Ram
38k • written 10.3 years ago by
14134125465346445
★ 3.6k
70
votes
31
replies
25k
views
10 follow
Illumina Instrument Type from fastq?
fastq
updated 7 months ago by
GenoMax
127k • written 6.8 years ago by
andrew.j.skelton73
6.5k
7
votes
31
replies
13k
views
Scale and Center [normalized] RNA-seq expression counts for PCA ?
sequencing
pca
genome
R
RNA-Seq
updated 11 months ago by
Ram
38k • written 8.1 years ago by
gaelgarcia
▴ 250
99
votes
31
replies
81k
views
18 follow
Best Way To Merge A Many Thousand Small Bam Files Into One Big Bam File?
bam
picard
samtools
merge
updated 8 months ago by
Ram
38k • written 11.7 years ago by
2184687-1231-83-
★ 5.0k
116
votes
31
replies
35k
views
24 follow
Forum:
Where To Look For Quality Bioinformatics Short Courses And Workshops?
Courses
updated 9 months ago by
Ram
38k • written 9.6 years ago by
Eric Normandeau
11k
94
votes
31
replies
37k
views
17 follow
What Is The Quickest Algorithm For Range Overlap?
python
alignment
next-gen
sequencing
database
updated 12 months ago by
Ram
38k • written 12.6 years ago by
User 1586
▴ 280
45
votes
31
replies
8.1k
views
6 follow
What Improvements Would You Recommend For This Genome Scaffolding Software?
genome
scaffolding
next-gen-sequencing
updated 8 months ago by
Ram
38k • written 12.0 years ago by
Michael Barton
★ 1.8k
78
votes
31
replies
5.7k
views
14 follow
Forum:
Do Bad Questions Even Exist?
biostars
general
education
updated 6 weeks ago by
Ram
38k • written 12.1 years ago by
Chris Evelo
10k
28
votes
31
replies
4.7k
views
8 follow
Forum:
Biostar Ads Are Now Live. Feedback And Comments Are Sought.
biostars
updated 6 weeks ago by
Ram
38k • written 9.8 years ago by
Istvan Albert
97k
53
votes
31
replies
5.3k
views
15 follow
Biostar Flyer For Outreach
biostars
updated 6 weeks ago by
Ram
38k • written 12.4 years ago by
Mary
11k
12
votes
31
replies
4.7k
views
6 follow
Tutorial:
gene set filter/selection for training ab initio annotation tools
geneset
genome
gene
abinitio
updated 18 days ago by
Ram
38k • written 3.6 years ago by
Juke34
7.7k
89
votes
31
replies
12k
views
23 follow
Best Graphics Gallery Or Blogs For Bioinformatics Use
graphs
visualization
genomics
updated 8 months ago by
Ram
38k • written 11.1 years ago by
John
★ 1.5k
3
votes
31
replies
2.4k
views
Extract reads from BAM file with known variant
bam
variant
samtools
7 months ago by
pablo
▴ 230
143
votes
30
replies
126k
views
25 follow
Useful Bash Commands To Handle Fasta Files
command-line
command-line
fasta
list
bash
updated 6 months ago by
Ram
38k • written 11.1 years ago by
Anima Mundi
★ 2.9k
17
votes
30
replies
29k
views
8 follow
Getting A Vcf File From A Fasta Alignment
vcf
fasta
conversion
alignment
updated 11 months ago by
Ram
38k • written 9.1 years ago by
Bioch'Ti
★ 1.1k
41
votes
30
replies
22k
views
24 follow
Is There A List Of Top N Bioinformatics Or Genome Software Company Or Studio ?
genome
software
updated 8 months ago by
Ram
38k • written 11.8 years ago by
Gentle Yang
▴ 190
15
votes
30
replies
2.8k
views
how to retrieve specific raws from a data matrix based on Affymetrix ID in Linux
affymetrix
linux
matrix
updated 11 months ago by
Ram
38k • written 8.2 years ago by
Mo
▴ 920
34
votes
30
replies
1.8k
views
6 follow
Tool:
BioFlows - Container-enabled Bioinformatics pipeline engine
workflow
next-gen
RNA-Seq
pipeline
updated 6 days ago by
Ram
38k • written 2.3 years ago by
mfawzy.sami
▴ 90
83
votes
30
replies
5.5k
views
18 follow
Forum:
Optimal design for bioinformatics "lab" space?
design
lab-space
updated 8 months ago by
Ram
38k • written 8.0 years ago by
Casey Bergman
18k
37
votes
30
replies
4.0k
views
7 follow
Forum:
Spam In Rss Feeds
meta
RSS
updated 4 weeks ago by
Ram
38k • written 10.2 years ago by
Madelaine Gogol
5.3k
102
votes
30
replies
59k
views
25 follow
Tools To Find Gene Ontology Term Enrichment
gene
enrichment
tool
updated 9 months ago by
Ram
38k • written 13.1 years ago by
Biostar User
★ 1.0k
61
votes
30
replies
30k
views
13 follow
Remove mitochondrial reads from BAM files
awk
samtools
BAM
RNA-Seq
updated 11 months ago by
Ram
38k • written 8.2 years ago by
enricoferrero
▴ 880
9
votes
30
replies
9.5k
views
small RNA-seq pipelines
small-RNA-seq
pipelines
updated 10 months ago by
Ram
38k • written 8.1 years ago by
Saad Khan
▴ 420
64
votes
29
replies
14k
views
15 follow
Forum:
Fundamentals Of Designing Biological Databases?
database
updated 6 weeks ago by
Ram
38k • written 12.4 years ago by
anon1234z
▴ 130
49
votes
29
replies
10k
views
7 follow
How to get sample names and genotype for SNP in multi-sample VCF file
SNP
genotype
GATK
updated 12 months ago by
User000
▴ 640 • written 5.1 years ago by
hellbio
▴ 490
17
votes
29
replies
5.6k
views
How can I easily remove overlapping transcripts, keeping only longest transcript, in a GFF file.
gff
parse
updated 5 days ago by
Juke34
7.7k • written 4.5 years ago by
a.rex
▴ 350
33
votes
29
replies
19k
views
12 follow
Large File Transfers Of Ngs Data: Rsync / Bbcp / Unison / What?
data
updated 3 months ago by
Ram
38k • written 9.7 years ago by
Dan Sheppard
▴ 110
136
votes
29
replies
6.4k
views
16 follow
How Do We Discourage Ad-Hoc Bioinformatic Analyses?
software
updated 11 months ago by
Ram
38k • written 12.2 years ago by
Jeremy Leipzig
21k
34
votes
29
replies
30k
views
10 follow
Downloading And Maintaining A Local, Blast-Able Nr Database
ncbi
database
blast
installation
updated 10 months ago by
Ram
38k • written 12.0 years ago by
Anjan
▴ 830
267
votes
29
replies
251k
views
25 follow
How To Filter Mapped Reads With Samtools
samtools
updated 4 months ago by
Ram
38k • written 10.4 years ago by
sohadb1357
▴ 610
6
votes
29
replies
1.9k
views
Column lengths differ error (ArchR)
atac-seq
cellranger
r
archr
updated 9 months ago by
GenoMax
127k • written 9 months ago by
bioinformatics.girl
▴ 10
61
votes
29
replies
6.4k
views
14 follow
Best bioinfo one-liners?
linux
updated 11 weeks ago by
Ram
38k • written 7.9 years ago by
Manu Prestat
4.1k
29
votes
29
replies
2.5k
views
6 follow
Tool:
weld (former brew) - yet another fastq utility
illlumina
python
updated 8 months ago by
Ram
38k • written 7.1 years ago by
tinysnippets
▴ 40
82
votes
28
replies
28k
views
19 follow
Tutorial:
How to create a mutation landscape (waterfall) plot with GenVisR
BioConductor
GenVisR
Graphics
R
updated 6 weeks ago by
Ram
38k • written 7.0 years ago by
Obi Griffith
20k
18
votes
28
replies
13k
views
8 follow
Subsample BAM to fixed number of alignments
subsampling
bam
updated 12 weeks ago by
Ram
38k • written 7.8 years ago by
Daniel
★ 3.9k
33
votes
28
replies
10k
views
9 follow
Is There Any Reference Exome ?
exome
next-gen-sequencing
updated 3 months ago by
Ram
38k • written 12.0 years ago by
Khader Shameer
18k
72
votes
28
replies
5.2k
views
10 follow
Forum:
Bioinformatics commercial services as a risk factor for scientific misconduct
commercial-services
ethics
misconduct
updated 9 months ago by
Ram
38k • written 8.2 years ago by
Angle45
▴ 90
60
votes
28
replies
7.3k
views
27 follow
Forum:
Jim Robinson of the Integrative Genomics Viewer (IGV) uses this
uses-this
updated 18 days ago by
Ram
38k • written 8.5 years ago by
Istvan Albert
97k
16
votes
28
replies
21k
views
15 follow
Extract Base Based On Position From Bam File
mpileup
samtools
updated 8 months ago by
Prakki Rama
★ 2.6k • written 10.8 years ago by
Empyrean
▴ 160
49
votes
28
replies
25k
views
12 follow
Trimming A Fastq File Representing Rna-Seq Data
fastq
RNA-seq
updated 9 hours ago by
Ram
38k • written 11.0 years ago by
Varun Gupta
★ 1.2k
38
votes
28
replies
15k
views
11 follow
Alternatives To Galaxy For Wrapping Command Line Tools In A Graphical User Interface?
galaxy
command-line
updated 10 months ago by
Ram
38k • written 11.3 years ago by
Samuel Lampa
★ 1.3k
18
votes
27
replies
17k
views
20 follow
Where Can I Download Vcf Files For Publicly Available Data?
vcf
snp
updated 3 days ago by
Ram
38k • written 11.3 years ago by
Kevin
▴ 640
197
votes
27
replies
30k
views
20 follow
Bioinformatics Cartoon
bioinformatics
updated 5 weeks ago by
Ram
38k • written 11.2 years ago by
Maxime Lamontagne
★ 2.3k
1,000 results • Page
3 of 20
Recent Votes
A: In Seurat, How Do nCount_RNA Differ from nFeature_RNA?
smoothing or binning bigWig file
List of Ongoing and Planned Long Read Sequencing studies?
Are We Rude/Do We Expect Too Much From People Asking Questions On This Forum?
Answer: Read lengths greater than insert length
A: Changing Output From Gene ID to Symbol When Running findMarkers from Scran
Answer: BLAST Database error: No alias or index file found for nucleotide database
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Recent Replies
Comment: Most efficient way to run Diamond against a very very large database (i.e., NCBI
by
cfos4698
▴ 700
Keep in mind the potential effect on e-values brought about by splitting a database into chunks then combining the results, discussed here:…
Comment: split fasta file to train deep learning model
by
shenwei356
7.9k
Excluding sequences containing any letter not belonging to the 20 [amino acids letters](https://github.com/shenwei356/bio/blob/master/seq/a…
Comment: split fasta file to train deep learning model
by
pinheirofabiano
▴ 10
@shenwei356, thank you very much for your help, perfect! But now I realized that some fasta sequences contain the letter "B", which is ou…
Comment: Most efficient way to run Diamond against a very very large database (i.e., NCBI
by
Mensur Dlakic
★ 23k
I think it depends on the speed of your local disks and the memory amount. On a single node, breaking up the database doesn't sound like a …
Comment: Sample size for population genetics
by
Jeremy Leipzig
21k
Other populations just make the model harder to generalize, not easier.
Comment: Are We Rude/Do We Expect Too Much From People Asking Questions On This Forum?
by
Vincent Laufer
★ 2.5k
i think there is some of that - my most upvoted comment of all time was a dismissive comment i made while extremely tired. for context i ha…
Comment: Molecular biologist / clinical pharmacologist (f/m/d)
by
Jeremy
▴ 770
Is this job on site in Vienna or remote?
Comment: smoothing or binning bigWig file
by
rls_08
▴ 40
if you use bigwigCompare , that would not create a sliding window, but instead, it will output the mean for each bin, according to the -bin…
Comment: Sample size for population genetics
by
zimmer.schweiz
• 0
Thank you so much for your answer. For common polygenic diseases, would it make sense to increase the number of populations sampled, in ord…
Answer: Sample size for population genetics
by
Jeremy Leipzig
21k
For a rare penetrant monogenic disease? A few cases. For a common polygenic disease or trait? 500k-10M
Answer: using GRanges metadata to constrain overlap searches between objects
by
seidel
11k
Rather than do all overlaps all the time for all samples, why not restrict the data by sample when you can. The code below works about 4 ti…
Comment: How to get gene from PSIBLAST resuts
by
Tom
• 0
Hello, thank you for your answer, I have a question, Why the information from the GFF file and from the feature table is different? I see …
Comment: SNP ID (rsID) to Chr no. and Position
by
Jewahir
• 0
Yeah, thank you for that!!
Comment: 1000 genomes hg38 with dbSNP rsid
by
Ram
38k
It should be pretty straightforward. Just to save you some pain, run these on the 1000g VCF once you download it: 1. `vt decompose -s` to …
Comment: 1000 genomes hg38 with dbSNP rsid
by
Vince
▴ 150
Yeah, I had some hope that I wouldn't need to mess with doing this ...
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