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1,000 results • Page
5 of 20
Sort: Votes
Rank
Views
Votes
Replies
8
votes
13
replies
2.5k
views
Issue about install Cutadapt in ubuntu1404
cutadapt
7.1 years ago by
Joe
▴ 30
8
votes
4
replies
2.4k
views
Global Sequence Alignment
alignment
11.0 years ago by
behrang
• 0
8
votes
7
replies
5.9k
views
Download human 3 UTR FASTA file
genome
8.2 years ago by
bharata1803
▴ 560
8
votes
11
replies
3.6k
views
Semantic Similarity selection in REVIGO: which is better? many clusters or few?
go
revigo
gene ontology
6.5 years ago by
Farbod
★ 3.4k
8
votes
5
replies
3.6k
views
Is it possible to guess sequencing platform used based on a FASTQ/BAM file?
BAM
FASTQ
updated 17 months ago by
Ram
43k • written 8.9 years ago by
Andrew
▴ 60
8
votes
7
replies
3.9k
views
6 follow
Compatibility between my reference genome and GTF file
rna-seq
hisat2
alignment
reference genome
5.6 years ago by
Batu
▴ 250
8
votes
8
replies
1.5k
views
microRNA-seq sequence lenght distribution after trimming
alignment
rna-seq
5.3 years ago by
szabo.marton
▴ 10
8
votes
10
replies
2.0k
views
FASTA of translated amino acid sequences in their six reading frames, which one is the optimal?
aminoacid
protein
peptide
Reading
optimal
frames
2.8 years ago by
Luis999
▴ 20
8
votes
7
replies
596
views
adjusting parameters in ViolinPlot did not work
single-cell
updated 3 months ago by
Ram
43k • written 3 months ago by
synat.keam
▴ 100
8
votes
25
replies
3.1k
views
construction of a database
sql
noSQL
neo4j
database
updated 14 months ago by
Ram
43k • written 3.0 years ago by
Debut
▴ 20
8
votes
8
replies
2.8k
views
Making chain files
Assembly
genome
alignment
sequence
updated 4.8 years ago by
Biostar
20 • written 4.8 years ago by
mc2548
▴ 50
8
votes
7
replies
4.3k
views
ORF finder script
orf
open reading frame
bash
shell
sequencing
7.4 years ago by
ahm3dhany
▴ 20
8
votes
7
replies
6.9k
views
I got low overall alignment rate running HiSAT2
RNA-Seq
hisat
hisat2
alignment
7.7 years ago by
sslee1015
• 0
8
votes
11
replies
1.9k
views
Sending files to Galaxy
Galaxy
fastq
7.6 years ago by
statfa
▴ 760
8
votes
5
replies
1.7k
views
differential expression analysis with DESeq2 & edgeR
RNA-Seq
3.5 years ago by
Rob
▴ 170
8
votes
20
replies
2.7k
views
Getting read depth for normal and tumour
R
WGS
vcf
5.1 years ago by
zizigolu
★ 4.3k
8
votes
6
replies
5.7k
views
miRanda output meaning?
rna-seq
updated 7.0 years ago by
WouterDeCoster
47k • written 7.0 years ago by
stijn.vandenbrande
▴ 40
8
votes
7
replies
4.1k
views
Error with Bowtie 2
bowtie2
alignment
6.9 years ago by
valerie
▴ 100
8
votes
5
replies
912
views
Why some genome assemblies don't have annotation?
genome
assembly
5.1 years ago by
860101959
▴ 10
8
votes
4
replies
2.0k
views
using different tools to identify differential exprssed genes
rna-seq
RNA-Seq
R
updated 19 months ago by
Ram
43k • written 8.7 years ago by
Anushka
▴ 20
8
votes
6
replies
4.4k
views
Bwa Aln -Q 15 When To Use It? What Does It Do?
bwa
trimming
updated 11.8 years ago by
Istvan Albert
100k • written 11.8 years ago by
Kevin
▴ 640
8
votes
9
replies
3.0k
views
6 follow
Big difference in estimated duplicate reads between forward and reverse of paired-end RNA-seq
RNA-Seq
duplication
fastqc
updated 23 months ago by
rohitsatyam102
▴ 860 • written 4.5 years ago by
Eric Lim
★ 2.1k
8
votes
15
replies
2.0k
views
RNAseq differential expression analysis : no significative FDR but significative GO enrichment
RNA-Seq
differential expression
4.6 years ago by
guillaume.rbt
★ 1.0k
8
votes
7
replies
1.1k
views
Why does Ensembl VEP provide HGVSg for some variants and not others?
vcf
VEP
11 months ago by
Jeremy Leipzig
22k
8
votes
7
replies
1.6k
views
Splitting the overall RNA-seq data
RNA-Seq
6.9 years ago by
aeserrano
▴ 40
8
votes
14
replies
2.5k
views
6 follow
kallisto pseudoalignment rate is lower than literature
pseudoalignment
kallisto
RNA-seq
2.8 years ago by
johnsonqinz
• 0
8
votes
7
replies
1.3k
views
grep with -f switch is not working
grep
updated 4.5 years ago by
zx8754
11k • written 4.5 years ago by
3335098459
▴ 30
8
votes
13
replies
1.7k
views
Mapped reads not mapping to a real sequence?
bam
sam
samtools
kallisto
15 months ago by
txema.heredia
▴ 110
8
votes
5
replies
1.1k
views
Bioinformatics Definitions
genome
updated 2.9 years ago by
Dunois
★ 2.5k • written 2.9 years ago by
joe_genome
▴ 40
8
votes
3
replies
856
views
How safe the UCSC is for patients data
RNA-Seq
updated 4.7 years ago by
ATpoint
82k • written 4.7 years ago by
Sara
▴ 250
8
votes
1
reply
1.6k
views
Genome Sequencing And Evolutionary History
evolution
updated 10.3 years ago by
Neilfws
49k • written 10.3 years ago by
robjohn7000
▴ 110
8
votes
8
replies
2.5k
views
6 follow
Blast Is Giving Me A Result Totally Unrelated To The Gene I Expect
blast
primer
updated 10.9 years ago by
Biostar
20 • written 11.1 years ago by
r.a.konrad
• 0
8
votes
10
replies
2.1k
views
PyWGCNA
WGCNA
11 months ago by
yoshifumimiya
▴ 40
8
votes
5
replies
2.0k
views
BLASTp command line : filtering results by a minimum % of identity and % coverage
BLASTp
updated 7 months ago by
Ram
43k • written 2.6 years ago by
A_heath
▴ 160
8
votes
4
replies
2.3k
views
Implementing a naive javascript-based de Bruijn graph
debruijn
graph
javascript
algorithm
8.0 years ago by
Pierre Lindenbaum
161k
8
votes
16
replies
1.4k
views
what is the ideal normalistation methods for TCGA gene expression or DNA methylation dtasets?
gene
next-gen
4.4 years ago by
Chaimaa
▴ 260
8
votes
9
replies
1.5k
views
superimpose
discovery
ds
visualizer
2.9 years ago by
Alex
▴ 20
8
votes
3
replies
3.4k
views
which tool is used for separating forward and reverse from paired end fastq
Assembly
6.8 years ago by
ranjini.shakthi
• 0
8
votes
11
replies
4.1k
views
STAR can not detect this chimeric read
RNA-Seq
fusion
STAR
updated 7.5 years ago by
Biostar
20 • written 7.7 years ago by
Nicolas Rosewick
11k
8
votes
10
replies
817
views
bash script
whole-genome-sequencing
updated 4 weeks ago by
Ram
43k • written 5 weeks ago by
bestone
▴ 30
8
votes
6
replies
951
views
How to create a Venn Diagram for overlapping SVs from a merged VCF
truvari
structural-variants
r
vcf
venn-diagram
6 months ago by
Matteo Ungaro
▴ 100
8
votes
9
replies
3.1k
views
error in rstudio
csv
matrix
rstudio
updated 19 months ago by
Ram
43k • written 8.7 years ago by
zizigolu
★ 4.3k
8
votes
4
replies
3.2k
views
How to use machine learning in Fastq/Fasta data?
machine learning
fasta
fastq
sequencing
7.0 years ago by
inkprs
▴ 70
8
votes
14
replies
2.6k
views
RNA-Seq analysis with standard p-value
RNA-Seq
7.3 years ago by
####
▴ 220
8
votes
17
replies
4.0k
views
Getting nan value in vcftool relatedness command?
vcftools
relatedness
6.3 years ago by
Sharon
▴ 610
8
votes
4
replies
2.2k
views
Use Of Terms In Genome-Wide Analysis: Phenotype / Functionality / Fitness
12.8 years ago by
2184687-1231-83-
★ 5.1k
8
votes
12
replies
3.5k
views
fastq file format error
fastq
illumina
updated 5.0 years ago by
Pierre Lindenbaum
161k • written 5.0 years ago by
hafiz.talhamalik
▴ 350
8
votes
11
replies
2.0k
views
using STAR instead of HISAT2
STAR
updated 21 months ago by
Ram
43k • written 21 months ago by
Chris
▴ 280
8
votes
3
replies
1.2k
views
Package installation error using Bioconda
antismash
Bioconda
17 months ago by
A_heath
▴ 160
8
votes
4
replies
15k
views
Use of if-else statement in snakemake rule
snakemake
if-else
python
updated 4.5 years ago by
schroder.julia
• 0 • written 6.8 years ago by
Jokhe
▴ 140
1,000 results • Page
5 of 20
Recent Votes
Answer: featureCounts output summary assigned value higher than uniquely mapped reads fr
Answer: Doubt about the process of annotation, detection, identification and classificat
Answer: Filtering VCF files based on VAF giving incorrect results
Problems with breakdancer (sv caller) output.
Problems with breakdancer (sv caller) output.
Comment: Add stats to boxplot in R
Answer: Genotyping sites with N in reference genome
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Answer: How can you *consistently* download BioProject IDs from NCBI's BioSample databas
by
Ash
• 0
I know this was asked several years ago, but finding this post helped me solve my own problem and in the process I solved this one too. …
Answer: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
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Would Parkinson's be expected to have an effect on blood cells? Neurons, sure, but blood cells?
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by
MarcosCosta
• 0
Thank you very much, you've helped me a lot
Comment: Filtering VCF files based on VAF giving incorrect results
by
Arton
• 0
Thank you. I can't try a completely new tool but I will keep your command for future use. Do you think my commands were correct? For exampl…
Comment: Add stats to boxplot in R
by
Ghada
• 0
Thanks. Thats work
Comment: Genotyping sites with N in reference genome
by
Zhenyu Zhang
★ 1.2k
Whether N -> A/T/G/C represents a variant is heavily dependent on the tool itself, and I know most tools don't. Since you don't see it in y…
Comment: calculating genomic coverage/ base overlap in R
by
marco.barr
▴ 110
The code seems correct at first glance... How did you generate the data in the Excel file? Have you checked the exon annotations? You could…
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
GenoMax
142k
Did you remeber to unzip/untar the `nt` preformatted files that you downloaded?
Comment: Genotyping sites with N in reference genome
by
shpak.max
▴ 50
Just to clarify, I have set additional sites in the reference genome to 'N', which means (based on your statement) that these will not be g…
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
Pierre Lindenbaum
161k
see https://www.biostars.org/p/9496674/ <!-- when i runed blastn(version 2.15) and nt database(latest version). I used aspera to download…
Answer: Genotyping sites with N in reference genome
by
Pierre Lindenbaum
161k
> Does UnifiedGenotyper skip/ignore sites where the reference genotype is N yes. The variant is in YOUR data, not in the reference where '…
Comment: Can 5' and 3' scRNAseq be processed with the same pipeline?
by
yura.grabovska
▴ 70
Do you have samples that should in theory have a good degree over overlap in terms of cell types across the two sequencing types? I would …
Comment: Wrong ZYGOSITY by ensembl vep on DeepVariant vcf file
by
asalimih
▴ 60
I found out that vep is only checking the GT field therefore assigning HOM to the Zygosity. Therefore the problem should be from deepvarian…
Comment: Add stats to boxplot in R
by
Lélé
▴ 10
To remove "Kruskall Wallis" you can try adding the argument label="p" or label = "p.signif" which displays the p-value or *** like this: …
Answer: Sequencing Depth (Read Depth) Calculations
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142k
You could also use `pandepth` ([**LINK**][1]) or `mosdepth` ([**LINK**][2]) as well. These will allow you to be flexible about windowed cov…
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