Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : this year
all time
today
this week
this month
this year
1,000 results • Page
4 of 20
Sort: Votes
Rank
Views
Votes
Replies
44
votes
3
replies
13k
views
Tutorial:
A Wet-Lab Guide to 'what I wish I had known' for Computational Biology
bioinformatics
computational-biology
updated 11 months ago by
Ram
43k • written 8.0 years ago by
Sinji
★ 3.2k
44
votes
4
replies
20k
views
Best way to compare two samples in a VCF file
VCF
Variant
Genotype
Comparison
SNP
updated 7 months ago by
Ram
43k • written 7.3 years ago by
Matteo Schiavinato
★ 3.6k
44
votes
9
replies
5.3k
views
6 follow
How Much Do You Trust Geneontology Annotations?
gene-function
subjective
updated 5 months ago by
Ram
43k • written 14.2 years ago by
Giovanni M Dall'Olio
28k
44
votes
9
replies
57k
views
FindConservedMarkers vs FindMarkers vs FindAllMarkers Seurat
next-gen
RNA-Seq
single-cell
R
updated 8 months ago by
camillab.
▴ 160 • written 4.3 years ago by
Payal
▴ 160
43
votes
12
replies
5.7k
views
11 follow
What Is The Best Way To Share Scripts Between Members Of A Lab?
general
subjective
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Giovanni M Dall'Olio
28k
43
votes
28
replies
5.5k
views
13 follow
Post Your Prefered Bioinformatics Short Code
code
updated 4 months ago by
Ram
43k • written 14.0 years ago by
Eric Normandeau
11k
43
votes
37
replies
2.4k
views
7 follow
Forum:
Checking the quality and reliability in bioinformatics
reproducibility
updated 10 months ago by
Ram
43k • written 6.5 years ago by
zizigolu
★ 4.3k
43
votes
44
replies
5.4k
views
14 follow
Macbook M1 pro/M2 pro or Dell (with Ubuntu/other linux distribution) for bioinformatics stuff?
metagenomics
amplicon
macbook
Intel
MacOs
updated 5 months ago by
steve
★ 3.5k • written 5 months ago by
l.gallucci
▴ 10
43
votes
21
replies
5.4k
views
9 follow
Helping Biostar Grow
biostars
updated 4 months ago by
Ram
43k • written 14.0 years ago by
Eric Normandeau
11k
42
votes
16
replies
33k
views
14 follow
Generating consensus sequence from bam file
genome
samtools
bwa
fasta
updated 6 months ago by
jkbonfield
★ 1.2k • written 5.1 years ago by
chparada
▴ 70
42
votes
15
replies
12k
views
12 follow
Preferred Tools For Making Analysis Pipeline Flowchart ?
pipeline
updated 9 months ago by
Ram
43k • written 11.1 years ago by
VS
▴ 730
42
votes
20
replies
3.3k
views
11 follow
Forum:
What are the most popular NGS tools?
ensembl
NGS
updated 11 months ago by
Ram
43k • written 8.0 years ago by
Emily
23k
41
votes
27
replies
5.9k
views
8 follow
Forum:
Why bioinformaticians need to know programming languages?
Python
R
Programming
updated 10 months ago by
Ram
43k • written 6.8 years ago by
nilo
▴ 90
41
votes
13
replies
26k
views
13 follow
Gene Set Enrichment Analysis after DESeq2
RNA-Seq
DESeq2
geneontology
GSEA
updated 21 days ago by
CTLong
▴ 90 • written 6.4 years ago by
Sreeraj Thamban
▴ 290
40
votes
6
replies
15k
views
7 follow
Mapping Ensembl Gene IDs with dot suffix
ensembl
gene
biomart
bioconductor
R
updated 8 months ago by
zx8754
11k • written 6.1 years ago by
mk
▴ 290
40
votes
19
replies
9.5k
views
12 follow
Is There A Site Where Call For Papers And Conferences Are Listed In One Place?
papers
conference
updated 4 months ago by
Ram
43k • written 14.0 years ago by
Brandstaetter
▴ 270
40
votes
23
replies
4.0k
views
12 follow
Forum:
Why learn programming in bioinformatics?
Programming
updated 10 months ago by
Ram
43k • written 5.6 years ago by
joselu
▴ 110
40
votes
35
replies
13k
views
10 follow
find positions of a short sequence in a genome
sequence
search
updated 7 months ago by
Mark
★ 1.5k • written 7.6 years ago by
igor
13k
39
votes
6
replies
19k
views
Tutorial:
Creating chromosome karyotype plot with R and ggplot2
ggplot2
R
chromosome
karyotype
updated 10 months ago by
Ram
43k • written 6.6 years ago by
steve
★ 3.5k
39
votes
15
replies
23k
views
9 follow
How Do I Access And Query Entire Genome Sequences With R
gene
r
updated 4 months ago by
Ram
43k • written 14.0 years ago by
John
▴ 790
39
votes
21
replies
13k
views
10 follow
Forum:
Orientation of PE reads a review of --fr --ff and --rf meanings
RNA-Seq
updated 10 months ago by
Ram
43k • written 5.4 years ago by
Juke34
8.5k
39
votes
25
replies
4.3k
views
9 follow
Forum:
Making a mac book Bioinfo ready (El Capitan)
mac
software-installation
updated 11 months ago by
Ram
43k • written 8.1 years ago by
Eric Normandeau
11k
39
votes
11
replies
8.9k
views
11 follow
Where Can I Get The Secondary Structure Of A Protein?
protein
structure
sequence
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Giovanni M Dall'Olio
28k
39
votes
28
replies
10k
views
10 follow
How Much Does It Cost To Align A Flowcell In The Cloud?
cloud
8 weeks ago by
Jeremy Leipzig
22k
39
votes
18
replies
5.9k
views
10 follow
Any Open Notebook Science In Bioinformatics?
open-notebook
updated 4 months ago by
Ram
43k • written 13.9 years ago by
Heather Piwowar
▴ 380
39
votes
16
replies
36k
views
16 follow
Tutorial:
installing samtools with conda - overcoming two common errors
samtools
conda
updated 3 months ago by
GenoMax
140k • written 3.6 years ago by
lavinia.gordon
▴ 160
39
votes
23
replies
33k
views
11 follow
bcftools: error while loading shared libraries: libcrypto.so.1.0.0: cannot open shared object file: No such file or directory
bcftools
updated 6 months ago by
s.w.vanderlaan
▴ 40 • written 2.7 years ago by
Michal Nevo
▴ 130
38
votes
21
replies
19k
views
8 follow
Tool:
pybam - 100% python BAM reader
python
htspython
bam
pysam
updated 9 months ago by
Ram
43k • written 8.0 years ago by
John
13k
38
votes
11
replies
4.0k
views
7 follow
Python Documentation Tools
python
updated 9 months ago by
Ram
43k • written 13.8 years ago by
Thaman
★ 3.3k
38
votes
14
replies
9.0k
views
8 follow
Is There A Non-Perl Alternative To Accessing Ensembl'S Api?
ensembl
python
biopython
genome
updated 4 months ago by
Ram
43k • written 14.0 years ago by
Rvidal
▴ 270
38
votes
17
replies
3.1k
views
7 follow
Forum:
Why does bioinformatics use a special format like a BAM file instead of a database like SQLite?
sam
bam
samtools
updated 9 months ago by
Ram
43k • written 3.6 years ago by
kojix2
▴ 250
38
votes
19
replies
10k
views
10 follow
Forum:
Kallisto New RNA-seq quantification method discussion
RNA-Seq
updated 11 months ago by
Ram
43k • written 8.0 years ago by
morovatunc
▴ 550
38
votes
8
replies
1.5k
views
6 follow
News:
What happens when a bioinformatician has his own genome sequenced for $300?
DNAseq
DNA
WGS
updated 9 months ago by
Alex Reynolds
35k • written 9 months ago by
David Langenberger
11k
38
votes
31
replies
2.8k
views
10 follow
Forum:
To the Biologists out there: What bioinf tool are you missing?
education
career
updated 11 months ago by
Ram
43k • written 7.7 years ago by
mschmid
▴ 180
38
votes
26
replies
18k
views
16 follow
GO analysis: DAVID vs GREAT vs GOrilla
RNA-Seq
ChIP-Seq
GO
gene ontology
written 8.1 years ago by
biostart
▴ 370
38
votes
12
replies
18k
views
8 follow
BEDOPS gtf2bed conversion error with Ensembl GTF
gtf2bed
ensembl
bedops
gtf
updated 4 weeks ago by
Alex Reynolds
35k • written 7.6 years ago by
bioinformatics.cancer
▴ 260
38
votes
25
replies
9.0k
views
13 follow
FASTA file of fixed length
sequence
fasta
updated 6 months ago by
Ram
43k • written 8.0 years ago by
waqasnayab
▴ 250
38
votes
7
replies
2.2k
views
News:
2 last seats available - 7th Berlin Summer School in NGS Data Analysis (September 4-8 in Berlin)
Transcriptomics
DNA-Seq
Variant-Calling
RNA-Seq
8 months ago by
David Langenberger
11k
38
votes
19
replies
11k
views
Tool:
Excel add-in for DNA/RNA string manipulations
sequence
DNA
RNA
Excel
updated 9 months ago by
Ram
43k • written 8.1 years ago by
jgbaum
▴ 140
37
votes
9
replies
4.3k
views
8 follow
What are the advantages of using the T2T as a reference vs GRCh38 today?
reference
GRCh38
t2t
calling
variant
updated 10 months ago by
LauferVA
4.1k • written 11 months ago by
onter
▴ 170
37
votes
16
replies
3.9k
views
9 follow
Forum:
Sanger sequencing is no longer the gold standard?
Sanger
NGS
updated 10 months ago by
Ram
43k • written 6.4 years ago by
lamteva.vera
▴ 220
37
votes
20
replies
7.1k
views
14 follow
Online Bioinformatics Resources
online-resources
updated 4 months ago by
Ram
43k • written 14.0 years ago by
Eric Normandeau
11k
36
votes
16
replies
14k
views
8 follow
How to identify 16s sequences from binning data(contigs)?
genome
Assembly
sequence
blast
updated 8 months ago by
Kermit
▴ 90 • written 8.5 years ago by
liuyifan2014
▴ 110
36
votes
17
replies
3.6k
views
9 follow
Which Software Development Technique Is Used In Your Lab?
subjective
updated 4 months ago by
Ram
43k • written 14.0 years ago by
Giovanni M Dall'Olio
28k
36
votes
25
replies
32k
views
15 follow
Downsampling dataset with more than 60 million reads
next-gen
RNA-Seq
updated 3 months ago by
asalimih
▴ 60 • written 9.6 years ago by
mike
▴ 90
36
votes
8
replies
3.6k
views
6 follow
Forum:
Time Management Strategies and Advice for Bioinformaticians
professional-skills
updated 11 months ago by
Ram
43k • written 7.8 years ago by
sviatoslav.kendall
▴ 880
36
votes
11
replies
32k
views
6 follow
Sjdboverhang Option In Star
updated 8 months ago by
Kermit
▴ 90 • written 10.1 years ago by
Martombo
★ 3.1k
36
votes
39
replies
4.0k
views
11 follow
Forum:
Survey/Vote: If you could double the speed of any three commandline tools, which three would they be?
blast
RNA-Seq
alignment
next-gen-sequencing
updated 10 months ago by
Ram
43k • written 6.4 years ago by
dhbradshaw
▴ 130
36
votes
13
replies
7.2k
views
8 follow
How Do You Log Details Of Data Processing/ Pipelines / In Silico Analyses Performed
data
galaxy
written 12.9 years ago by
Pi
▴ 520
36
votes
34
replies
2.7k
views
9 follow
Forum:
New to bioinformatics.....
gene
updated 10 months ago by
Ram
43k • written 6.0 years ago by
sms.00196
• 0
1,000 results • Page
4 of 20
Recent Votes
Announcement: Research Topic "Mechanistic, Machine Learning and Hybrid Models of the 'Other' Endocrine Regulatory Systems in Health and Disease", Volume II
Comment: Number of CPUs to use by DRAP for transcriptomic assmbly
Comment: Gene reads all zero for each sample
Synthetic lethality and cancer database
Answer: log2(TPM+1)
Comment: Error in openning FastQC
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
Recent Locations •
All
France,
just now
Europe,
1 minute ago
Slovenia,
1 minute ago
United Kingdom,
3 minutes ago
Macao,
4 minutes ago
United Kingdom,
8 minutes ago
Iran,
12 minutes ago
Recent Awards •
All
Teacher
to
Pierre Lindenbaum
160k
Popular Question
to
brian.fristensky
▴ 460
Popular Question
to
Ann
★ 2.4k
Commentator
to
GenoMax
140k
Commentator
to
Devon Ryan
104k
Popular Question
to
amitpande74
▴ 20
Popular Question
to
beacamara
• 0
Recent Replies
Comment: Mapping ortholog human and mouse transcript
by
manaswwm
▴ 490
I usually perform biomaRt queries with their `getBM()` function where I list the input using `filter` and `values` option and my request in…
Comment: DESeq2 and normalization
by
JH
• 0
Thank you for your response. I have often seen commands like dds <- estimateSizeFactors(dds) normalized_counts <- counts(dds, normalized=T…
Comment: Number of CPUs to use by DRAP for transcriptomic assmbly
by
Mohamed Abderrahmane
▴ 10
It's the case that there's no indication of multi-threading in the documentation. However, it made me wonder why the developers would restr…
Answer: Is RNAseq data from a monoclonal cell line technically considered scRNAseq?
by
Soheil
▴ 90
Bulk RNAseq from any sample is still considered a bulk sample. Running bulk RNA sequencing on a sample with any level of cell type/state c…
Comment: Is it reasonable to discard reads that show variation of quality across its leng
by
BRENO
• 0
Yikes. Well, this is from an Illumina MiniSeq. Sure, I will use alignment, but only to remove host reads. Then the remaining reads will go …
Comment: Is it reasonable to discard reads that show variation of quality across its leng
by
GenoMax
140k
This is going to be tough to diagnose. Are you going to align to a reference? If so go ahead with the alignments to see if alignments turn …
Comment: Is it reasonable to discard reads that show variation of quality across its leng
by
BRENO
• 0
Thank you for replying. I have separated the reads with at least one N on them and they account for 0.2% of the total reads in the file (8'…
Comment: Error running local blastn in R using system2
by
Mensur Dlakic
★ 26k
The `-db data/nt_euk` switch means that in your current directory you have a subdirectory called `data`, and all the `nt_euk` files are in …
Comment: Low number of both surviving reads after trimming
by
Jay
• 0
Thank you for your opinion. I will try with lower LEADING and TRAILING bases. By the way, I tried to set `keepBothReads:true` through sear…
Comment: Error in openning FastQC
by
GenoMax
140k
At this point it would be beneficial to learn some of the basics of command line. Please use this UNIX tutorial since you seem to be new to…
Comment: vcf file: number of samples does not match number of columns
by
Pierre Lindenbaum
160k
> ore or have any suggestions for fixing it? it's a problem with your upstream process. You'd better fix it.
Comment: Error in openning FastQC
by
friszd
• 0
after running fastqc -o output.html input.fastq, terminal returns: " Specified output directory 'output.html' does not exist " , when i run…
Comment: Is it reasonable to discard reads that show variation of quality across its leng
by
GenoMax
140k
The question you should be looking into is why the Q scores are dropping there? Are there `N` calls indicating some issue with that cycle?
Comment: Error in openning FastQC
by
GenoMax
140k
What is `ctrl+c ctrl+v`? You may actually be killing the running fastqc process. If you run `fastqc` interactively (like what was shown ab…
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Dave Carlson
★ 1.7k
Ugh. I've definitely done this one before as well. And was none too happy about it.
Traffic: 2229 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6