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1,000 results • Page
3 of 20
Sort: replies
Rank
Views
Votes
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8
votes
11
replies
1.4k
views
Forum:
What makes a good bionformatics prediction service from the point of user experience?
server
prediction-service
updated 12 days ago by
Ram
39k • written 5.6 years ago by
aquaq
▴ 40
3
votes
11
replies
860
views
6 follow
BLAST command line scripting
BASH
updated 5 days ago by
Joe
21k • written 10 days ago by
Ali
▴ 10
6
votes
11
replies
4.0k
views
RShiny interactive volcano plots
R
Rshiny
Differential-expression
updated 11 days ago by
Ram
39k • written 5.5 years ago by
chetana
▴ 60
22
votes
11
replies
2.6k
views
Forum:
ExpressionSet in the age of tidyverse
expressionset
R
bioconductor
updated 6 days ago by
Ram
39k • written 5.1 years ago by
igor
13k
10
votes
11
replies
3.7k
views
7 follow
Forum:
What made you interested in Bioinformatics?
career
updated 11 days ago by
Ram
39k • written 5.5 years ago by
Hussain Ather
▴ 970
0
votes
11
replies
3.3k
views
Adding CDS features to Gff3 file
Genome-Annotation
updated 11 days ago by
Ram
39k • written 5.4 years ago by
abhijit.synl
▴ 60
7
votes
11
replies
584
views
Variant calling using samtools
samtools
updated 19 days ago by
lethalfang
▴ 130 • written 29 days ago by
Chris
▴ 100
0
votes
11
replies
508
views
Single cell chemistry
cell
single
chemistry
updated 3 hours ago by
swbarnes2
13k • written 2 days ago by
David
• 0
15
votes
11
replies
3.7k
views
9 follow
Forum:
Methodological problems are extremely common for enrichment analysis - beware the pitfalls before you publish
GSEA
DAVID
enrichment-analysis
-geneontology
updated 10 days ago by
Ram
39k • written 14 months ago by
mark.ziemann
★ 1.8k
21
votes
11
replies
1.6k
views
8 follow
Forum:
what I want to do after the PhD?
PhD
updated 18 days ago by
Ram
39k • written 6.2 years ago by
fi1d18
★ 4.2k
11
votes
11
replies
1.3k
views
8 follow
News:
Python Data Visualization Course. Last 3 spots left
next-gen
updated 3 days ago by
Ram
39k • written 4.5 years ago by
carlopecoraro2
★ 2.3k
4
votes
11
replies
5.3k
views
7 follow
GeneBank accession 2 Entrez gene id
NCBI
Genbank
updated 21 days ago by
Dast0840
• 0 • written 7.6 years ago by
盛夏
▴ 10
7
votes
11
replies
1.6k
views
News:
Bringing the power of Big Data to biomedical researchers
NGS
biomedical-research
updated 13 days ago by
Ram
39k • written 5.8 years ago by
Paul Kutzner
▴ 100
13
votes
11
replies
4.2k
views
Forum:
Anyone using Ubuntu on Windows (WSL)?
ubuntu
wsl
updated 5 days ago by
Ram
39k • written 4.9 years ago by
Batu
▴ 220
28
votes
11
replies
18k
views
9 follow
Salary For A Bioinformatics Programmer In Europe?
career
updated 6 days ago by
Ram
39k • written 11.7 years ago by
Jeroen Van Goey
2.3k
9
votes
11
replies
2.4k
views
Job:
Jobs at Ensembl - another job added. And another one. One more!
web
ensembl
design
annotation
updated 14 days ago by
Ram
39k • written 5.9 years ago by
Emily
23k
6
votes
11
replies
2.4k
views
TCGA CNV data 1p/19q codeletion (whole arm deletion)
TCGA
CNV
codeletion
GBM
LGG
updated 22 days ago by
Elbert
• 0 • written 3.0 years ago by
kwanghoon
▴ 20
21
votes
11
replies
1.6k
views
Forum:
Most important International Big Data Projects: Genetics and Epigenetics
big-data
updated 5 days ago by
Ram
39k • written 4.8 years ago by
Shicheng Guo
★ 9.3k
18
votes
11
replies
1.9k
views
8 follow
Forum:
Create a File format to store Variant
hgvs
json
variant
updated 5 days ago by
Ram
39k • written 4.9 years ago by
sacha
★ 2.4k
9
votes
11
replies
2.6k
views
7 follow
Forum:
Fields with biggest demand for bioinformatics?
career
updated 3 days ago by
Ram
39k • written 4.4 years ago by
BioinformaticsLad
▴ 200
10
votes
10
replies
1.5k
views
Forum:
Doctor looking fertility for a collaborator for text mining on pubmed
text-mining
fertility
pubmed
updated 11 days ago by
Ram
39k • written 5.5 years ago by
jeromebouaziz
• 0
0
votes
10
replies
895
views
6 follow
Online tool for turning Gene Ontology results into figures?
Gene-Ontology
updated 10 days ago by
Ram
39k • written 6 months ago by
andre.arrudalima
▴ 20
5
votes
10
replies
409
views
Error when viewing a bam file
samtools
27 days ago by
Chris
▴ 100
16
votes
10
replies
15k
views
Regarding Split reads and discordant reads
genome
sequence
sequencing
alignment
updated 12 days ago by
Ram
39k • written 5.6 years ago by
DL
▴ 40
2
votes
10
replies
957
views
Forum:
AddHealth Omics Data Source
AddHealthOmics
updated 3 days ago by
Ram
39k • written 4.5 years ago by
belevitt
• 0
23
votes
10
replies
2.4k
views
10 follow
Any suggestions for basic intro to submitting jobs to an HPC cluster?
ngs
hpc
updated 4 days ago by
Ram
39k • written 4.7 years ago by
m98
▴ 400
15
votes
10
replies
1.9k
views
6 follow
Forum:
help identifying bioinformatics operations tools
database
next-gen
operations
genomics
updated 3 days ago by
Ram
39k • written 4.5 years ago by
jsmedmar
▴ 80
7
votes
10
replies
1.5k
views
Forum:
Current MCB major thinking of going into Bioinformatics
career
updated 4 days ago by
Ram
39k • written 4.8 years ago by
SeYu
• 0
26
votes
10
replies
3.7k
views
6 follow
Forum:
Why not merging?
fastq
sequencing
updated 14 days ago by
Ram
39k • written 5.9 years ago by
finswimmer
16k
1
vote
10
replies
2.5k
views
How to specify/calculate subject coverage of the alignment (alignment of query[protein sequence] and subject[Nucleotide sequence]) in tBLASTn?
alignment
BLAST
tBLASTn
updated 2 days ago by
Ram
39k • written 4.2 years ago by
Kumar
▴ 100
9
votes
10
replies
978
views
6 follow
Forum:
What's more clear, loops or functions?
R
updated 4 days ago by
Ram
39k • written 4.6 years ago by
DriesB
▴ 110
29
votes
10
replies
2.6k
views
Forum:
How do you perform functional testing for your Bioinformatics tools?
development
testing
bug
reliability
updated 19 days ago by
Ram
39k • written 6.2 years ago by
shenwei356
8.1k
6
votes
10
replies
6.4k
views
Average bigwig files (not sum)
ChIP-Seq
bigwig
updated 19 days ago by
vanbelj
▴ 20 • written 3.2 years ago by
srhic
▴ 40
9
votes
10
replies
1.4k
views
Forum:
Brainstorming: applying bioinformatics NOT to public field. Ideas and perspectives
applied-sciences
data-analysis
updated 6 days ago by
Ram
39k • written 5.2 years ago by
lessismore
★ 1.3k
19
votes
9
replies
3.1k
views
Forum:
How to self-study (get onto) Bioinformatics and Data Analysis for Genomic, for working with real life genomics data?
R
genome
RNA-Seq
Python
updated 5 days ago by
Ram
39k • written 4.8 years ago by
WUSCHEL
▴ 720
18
votes
9
replies
3.0k
views
MAPQ filtering for clinical applications
MAPQ
clinical NGS
updated 5 days ago by
dunia.aburizeg
▴ 40 • written 5.7 years ago by
Kevin Blighe
85k
14
votes
9
replies
1.7k
views
Forum:
The push toward standardisation
stadardisation
updated 12 days ago by
Ram
39k • written 5.6 years ago by
Kevin Blighe
85k
6
votes
9
replies
926
views
Error when runing Bowtie2: (ERR): bowtie2-align exited with value 1
BAM
Bowtie
updated 17 days ago by
Ram
39k • written 4 months ago by
luzglongoria
▴ 40
7
votes
9
replies
1.1k
views
How to get the protein-domain relationship?
Protein-Domain
updated 2 days ago by
Ram
39k • written 4.2 years ago by
ahmedmelmoselhy
▴ 20
9
votes
9
replies
3.7k
views
Tutorial:
Determine % of reference genome covered by aligned SAM/BAM
reference-coverage
ngs
updated 12 days ago by
Ram
39k • written 5.7 years ago by
Kevin Blighe
85k
9
votes
9
replies
6.9k
views
News:
NovaSeq quality analysis
sequencing
updated 16 days ago by
Ram
39k • written 5.9 years ago by
Brian Bushnell
18k
1
vote
9
replies
1.4k
views
Multiple Alignment (~1400 sequences)
muscle
sequence
multiple-alignment
mafft
updated 13 days ago by
Ram
39k • written 6.0 years ago by
l.souza
▴ 80
3
votes
9
replies
449
views
How to extract summary statistics from GFF3 /GTF file?
gff3
gene-annotation
summary-statistics
updated 12 days ago by
Juke34
7.9k • written 12 days ago by
BioinfoBee
• 0
14
votes
9
replies
4.2k
views
8 follow
Forum:
MD into bioinformatics
MD
career
updated 3 days ago by
Ram
39k • written 4.4 years ago by
elina_beleva
▴ 30
9
votes
9
replies
15k
views
6 follow
Forum:
Open Source Bioinformatics projects for beginners
Open-Source
Beginners
updated 10 days ago by
Ram
39k • written 5.3 years ago by
Eugenia84
▴ 40
26
votes
9
replies
8.9k
views
6 follow
DESeq2 modelling and Wald's test
RNA-Seq
DESeq2
updated 4 days ago by
Picasa
▴ 640 • written 5.1 years ago by
bioinfo456
▴ 150
6
votes
9
replies
3.1k
views
peak calling of ChIP-seq
ChIP-Seq
updated 17 days ago by
Ram
39k • written 6.1 years ago by
Ben
▴ 60
1
vote
9
replies
514
views
gene annotation
gtf
gene-annotation
updated 17 days ago by
Ram
39k • written 17 days ago by
ahmad
• 0
1
vote
9
replies
1.4k
views
Forum:
Care to speculate? Are Protein Fragments or Entire Protein Sequences useful when classifying via Machine Learning techniques
protein
Machine-Learning
classification
updated 3 days ago by
Ram
39k • written 4.3 years ago by
mcc
▴ 80
8
votes
9
replies
3.1k
views
8 follow
Forum:
How can I contribute to the Bioinformatics community as a Software Engineer
software-engineer
updated 4 days ago by
Ram
39k • written 4.6 years ago by
Chen Sun
★ 1.1k
1,000 results • Page
3 of 20
Recent Votes
A: samtools sort bam file
C: Rna Composition Bias In Rna-Seq Analysis
Answer: featureCounts: ERROR: failed to find the gene identifier attribute
Answer: bedtools intersect zero output
Answer: What is the best way to clean bulk RNA-seq data?
What does <*> mean in a vcf file?
Comment: Bioinformatics Master's Student
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Comment: Using entrez-direct inside a for loop in bash
by
GenoMax
129k
While your questions is unrelated to the original thread you should do the following (one PMID per line in input file): $ for i in `ca…
Comment: Using entrez-direct inside a for loop in bash
by
Christina
• 0
Hi! I tried to do something similar, but it doesn't work. I have a list of Pubmed IDs and I want to retrieve their abstracts. for i …
Comment: featureCounts: ERROR: failed to find the gene identifier attribute
by
v.berriosfarias
▴ 90
yes I provided the column names just for showing it was a gtf file. Thanks for the recommendation of the SAF file. It worked!
Answer: What is the best way to clean bulk RNA-seq data?
by
ATpoint
72k
For the sake of simplicity and because it well stood the test of time I always use use `edgeR::filterByExpr()` which has reasonable default…
Comment: Is there anyway to cancel CPM normalization?
by
JACKY
▴ 80
hmm I'm not sure what you mean, but this is my code: GetGeneLength <- function(counts = counts){ ensembl = useEnsembl(bio…
Answer: how to intersect multiple bed files and get results in uncollapsed genomic inter
by
Alex Reynolds
35k
Generally, you could use `bedops --chop` with some piping and process substitutions with `bedmap` to get count/ID/score data: bedops -…
Comment: IGV grey vs white lines
by
Mohd
• 0
Hi, Thanks alot, This was really helpful and worked, however, I am looking for references where I can find how the minimap assign the MAPQ …
Comment: Single cell chemistry
by
swbarnes2
13k
You could still trick cellranger into processing them. Use umi tools to determine what the cell barcodes really are, (and see if they make…
Comment: Single cell chemistry
by
swbarnes2
13k
Well, A is a real letter. I don't know off the top of my head how cellranger deals with N's. But if the cell barcodes didn't match the v2 …
Comment: Single cell chemistry
by
David
• 0
That's the question, I think these data are not a useful entry for cellranger. Do you know if there is any other compatible software for th…
Comment: Single cell chemistry
by
David
• 0
I tried to add an "N" to the end of every read in R1 and cellranger did not found any barcode, results but no cells, I did it again adding …
Answer: ABySS genome assembler
by
shelkmike
▴ 920
You can use Kmergenie (http://kmergenie.bx.psu.edu/). It is a special tool for finding the optimal k-mer length.
Comment: Retrieving allele-specific information for a variant using VEP annotation
by
Ram
39k
It is pretty trivial to do the COSMIC annotation without tools such as VEP - download their coding and non-coding VCFs, normalize (decompos…
Answer: Perl. How to extract CDS and gene sequence in a specified interval from GenBank
by
Fungi-Beware!
• 0
Figured I need to attach an expected OUTPUT result. Should look something like this: ---------- ``` LOCUS 19 58617616 bp DNA HTG 23-NOV-2…
Comment: Upstream pseudogene causing MAPQ 0 and exclusion during variant calling
by
Joel Wallenius
▴ 120
Yes, well... surely it's better with some FPs and TPs than nothing at all, eh. Is there another way to do this? Hmm...
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