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121,414 results • Page
621 of 2429
Sort: Rank
Rank
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Votes
Replies
0
votes
1
reply
758
views
How to calculate the SNP score?
SNP
SCORE
updated 4.0 years ago by
Ram
45k • written 4.0 years ago by
Kélia
• 0
1
vote
2
replies
1.1k
views
Look at Different Locus in the Bam File
Genome
HG38
Rna-Seq
Nanopore
Sequencing
4.0 years ago by
santos48
▴ 40
0
votes
4
replies
909
views
Mapping gene list with chromosome location
R
updated 4.0 years ago by
Ram
45k • written 4.0 years ago by
imrankhanbioinfo
▴ 70
0
votes
2
replies
852
views
Unzipped output files: fasta files in python
fasta
python
updated 4.0 years ago by
Ram
45k • written 4.0 years ago by
Debut
▴ 20
0
votes
8
replies
2.1k
views
Inconsistency in SNP calls using bcftools merge for multiple vcf files
bcftools
vcf
snp
4.0 years ago by
evafinegan
• 0
2
votes
1
reply
609
views
Incrementally updating index files for Blast and for Bowtie2
blast
index
bowtie
updated 4.0 years ago by
GenoMax
152k • written 4.0 years ago by
iddo.nadav
▴ 30
1
vote
4
replies
2.0k
views
RNA-seq differential analysis with N batches and a technical replicate in each batch
RNA-Seq
deseq2
differential analysis
edger
updated 4.0 years ago by
ting.w.sf
• 0 • written 5.4 years ago by
jonathanli6022
• 0
0
votes
1
reply
1.5k
views
Five-parameter logistic (5PL) regression - Python or R ?
Bioassay
5PL
Python
R
updated 4.0 years ago by
salvatore.raieli2
▴ 90 • written 4.0 years ago by
perbdjcqgeiycltqxr
• 0
4
votes
2
replies
1.0k
views
Presence of proteins in a group of organisms
proteins
restriction
BLAST
updated 4.0 years ago by
h.mon
35k • written 4.0 years ago by
Vasiliy Krestov
▴ 30
2
votes
2
replies
850
views
Unable to read fasta file
fasta
updated 2.2 years ago by
Ram
45k • written 4.0 years ago by
Aritra
• 0
1
vote
4
replies
977
views
What is the best short reader to very large reference fasta?
mapping
alignment
fastq
bowtie2
bwa
read
4.0 years ago by
O.rka
▴ 740
7
votes
5
replies
1.8k
views
On whether or not to normalize scRNAseq expression like qPCR
single-cell
qpcr
rnaseq
updated 4.0 years ago by
i.sudbery
21k • written 4.0 years ago by
gundalav
▴ 380
2
votes
16
replies
8.3k
views
11 follow
PSMC: fq2psmc conversion problems
PSMC
conversion
fastq
psmcfa
updated 3.1 years ago by
Camila Martínez
▴ 40 • written 6.8 years ago by
dthorbur
★ 3.0k
3
votes
11
replies
2.5k
views
How to associate a gene to one general function?
gene
function
4.0 years ago by
Francois Piumi
▴ 70
0
votes
2
replies
1.1k
views
BED Heatmap
ChIP-seq
updated 4.0 years ago by
Ram
45k • written 4.0 years ago by
kstangline
▴ 80
3
votes
7
replies
3.6k
views
6 follow
PSMC Illegal division by zero
genome
software error
sequence
3.5 years ago by
YocelynGG
▴ 70
2
votes
5
replies
3.0k
views
snakemake job status monitoring
snakemake
pipelines
4.0 years ago by
Eugene A
▴ 190
1
vote
3
replies
1.2k
views
Read alignment anomaly
igv
reads
rna-seq
4.0 years ago by
daewowo
▴ 80
4
votes
3
replies
986
views
which genes causes breast cancer?
Breast
Cancer
updated 4.0 years ago by
Michael
55k • written 4.0 years ago by
mahsaajalalii210
• 0
4
votes
4
replies
1.1k
views
analysis of novel SARS-CoV-2 genomes
processing
phylogenetics
analysis
COVID19
updated 4.0 years ago by
GenoMax
152k • written 4.0 years ago by
basuanubhav
▴ 140
6
votes
6
replies
2.5k
views
How to generate GTF file from BLAST output?
GTF
4.0 years ago by
mathavanbioinfo
▴ 80
13
votes
12
replies
2.9k
views
How to determine reasonable expression threshold for of a gene from scRNAseq to imply its biological significance
statistics
single-cell
rnaseq
4.0 years ago by
gundalav
▴ 380
0
votes
0
replies
515
views
When to use Pharmacophore and QSAR, in which conditions.
design
Drug
4.0 years ago by
Sachidanand
• 0
38
votes
8
replies
55k
views
11 follow
Adding Read Groups To Bam Files
bam
gatk
samtools
bwa
updated 4.0 years ago by
zx8754
12k • written 13.0 years ago by
Zev.Kronenberg
12k
1
vote
8
replies
1.9k
views
Seqff.r script is giving error while running
R
4.0 years ago by
smrutimayipanda
▴ 20
1
vote
1
reply
3.3k
views
Interpret Clustal Omega Distance/Percent Identity Output for Multiple Proteins
Omega
Clustal
similarity
sequence
updated 4.0 years ago by
Mensur Dlakic
★ 29k • written 4.0 years ago by
taojincs
▴ 50
0
votes
0
replies
537
views
Detecting genetic mutation with raw data
mutation
Krt1
genetic
hyperkeratosis
krt10
4.0 years ago by
Amanda
• 0
4
votes
5
replies
1.4k
views
Are there any statistical method is suitable to solve
z-test
updated 2.5 years ago by
Ram
45k • written 4.0 years ago by
octpus616
▴ 120
2
votes
4
replies
44k
views
python 3.8 'No module named pip'
rna-seq
updated 4.0 years ago by
linehammer
▴ 10 • written 5.0 years ago by
amandanm
• 0
0
votes
1
reply
843
views
Downloading bacterial reference genome
reference
genome
updated 4.0 years ago by
shenwei356
8.7k • written 4.0 years ago by
Harry
• 0
0
votes
1
reply
862
views
Where to get the human mitochondiral reference genome?
GTF
human
genome
mitochondiral
updated 4.0 years ago by
GenoMax
152k • written 4.0 years ago by
mathavanbioinfo
▴ 80
2
votes
4
replies
1.2k
views
Advantages of split by chromosome?
cnv
split
gatk
updated 4.0 years ago by
Pierre Lindenbaum
166k • written 4.0 years ago by
kwanghoon
▴ 20
5
votes
4
replies
3.3k
views
distance matrix as input in R clustering functions ?
k-medioids-genetic-distances-mash
R
Clustering
updated 4.0 years ago by
Jean-Karim Heriche
27k • written 4.0 years ago by
v.berriosfarias
▴ 140
0
votes
0
replies
553
views
missing calls for a vcf file
SNP
4.0 years ago by
evafinegan
• 0
5
votes
7
replies
2.7k
views
How to find the functions of Reactome pathways?
Pathways
reactome pathways
DAVID
updated 4.0 years ago by
darklings
▴ 580 • written 7.1 years ago by
Chaimaa
▴ 260
0
votes
0
replies
658
views
ANOVA testing
R
ANOVA
p-values
4.0 years ago by
ehruan
▴ 10
1
vote
1
reply
1.5k
views
Plink error: Variant names are limited to 16000 characters.
plink
imputation
updated 4.0 years ago by
zx8754
12k • written 4.0 years ago by
biyao.wang1
▴ 10
1
vote
5
replies
2.7k
views
Job:
Computational Biologist position at the University of Alabama at Birmingham
UAB
Transcriptomics
Computational
updated 4.0 years ago by
Ram
45k • written 4.1 years ago by
lianov
▴ 20
0
votes
3
replies
2.4k
views
Job:
Statistical Bioinformatics Laboratory Head, WEHI, Melbourne, Australia
Australia
updated 2.0 years ago by
Ram
45k • written 4.2 years ago by
Gordon Smyth
★ 8.2k
4
votes
9
replies
2.4k
views
randomly sampling long read data for genome assembly
pacbio
assembly
genome
4.0 years ago by
jleehan
▴ 120
3
votes
8
replies
3.8k
views
Correlation plot
Correlation
R
corrplot
updated 4.0 years ago by
Arsenal
▴ 160 • written 4.0 years ago by
Rob
▴ 180
3
votes
5
replies
1.1k
views
6 follow
What genes are mutated in Lukemia?
Lukemia
updated 4.0 years ago by
seidel
11k • written 4.0 years ago by
Fatemehrazmjoyi
• 0
2
votes
4
replies
3.3k
views
TCGA Sample barcode
Tumor
Barcode
Normal
TCGA
updated 4.0 years ago by
Cyriac Kandoth
6.1k • written 4.0 years ago by
manjumoorthy95
▴ 60
0
votes
1
reply
657
views
combine metagenomic assemblies using cat?
Assembly
updated 4.0 years ago by
andres.firrincieli
3.9k • written 4.0 years ago by
goatsrunfaster
▴ 60
0
votes
5
replies
1.1k
views
Find sequence/variants from ancient-DNA genomes
DNA
ancient
updated 4.0 years ago by
4galaxy77
2.9k • written 4.0 years ago by
alexandrerouen
• 0
4
votes
12
replies
2.5k
views
Multifactor Design For RNA-seq Analysis
Rna-seq
batch
correction
DESeq2
multifactor
4.0 years ago by
David Martínez
▴ 10
2
votes
2
replies
1.0k
views
Best hit from BLAST for a particular genomic region
genomic
blast
region
best
hit
evalue
updated 4.0 years ago by
Alex Reynolds
36k • written 4.0 years ago by
johnny.sf
▴ 20
3
votes
4
replies
1.8k
views
Proportion of RNAseq reads mapping to rRNA, tRNA, mRNA, and intergenic or antisense regions of the genome?
GTF
featureCounts
NGS
GFF
updated 4.0 years ago by
i.sudbery
21k • written 4.0 years ago by
mathavanbioinfo
▴ 80
12
votes
9
replies
6.9k
views
Good annotation databases for a VCF file (somatic variants)
VCF
ANNOVAR
somatic
databases
annotation
updated 4.0 years ago by
emma.a
▴ 130 • written 4.1 years ago by
Zahra
▴ 110
8
votes
9
replies
2.1k
views
superimpose
discovery
ds
visualizer
4.0 years ago by
Alex
▴ 20
121,414 results • Page
621 of 2429
Recent Votes
Answer: Example of ClinVar pathogenic variant where the reference allele is pathogenic?
Comment: featureCounts -t option not working in v2.0.8?
Comment: Distribution of assayed SNPs per sample
Comment: Distribution of assayed SNPs per sample
Comment: How to convert from .spec to .bam?
Comment: making psam file for plink2
A: GSVA on RNAseq data (GTEX)
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Recent Replies
Answer: Example of ClinVar pathogenic variant where the reference allele is pathogenic?
by
Jeremy Leipzig
23k
For REF/REF entries the ALT is '.' wget https://ftp.ncbi.nlm.nih.gov/pub/clinvar/vcf_GRCh38/clinvar.vcf.gz gunzip -c "c…
Answer: Functional Analysis Using EMU Output – Has Anyone Tried This?
by
andres.firrincieli
3.9k
You can't use EMU with tools like PICRUSt2 because it doesn't produce typical outputs such as OTUs or ASVs. EMU works more like a read-lev…
Comment: featureCounts -t option not working in v2.0.8?
by
rfran010
★ 1.5k
Try the older version? Is it the same GTF from before? I would guess a formatting issue with the 9th column, but I haven't tried this ver…
Comment: should I remove the transcripts from annotate peak region in ATAC-seq
by
rfran010
★ 1.5k
It's not clear to me what you mean. How could you tell it's annotated to the transcript and not the genic region in the genome? Generally,…
Comment: mm10 blacklist regions detailed information
by
GenoMax
152k
If you are OK with ENCODE blacklists then you can find a BED file with the information at: https://github.com/Boyle-Lab/Blacklist/tree/mast…
Comment: identify unmapped regions
by
GenoMax
152k
> We've created a coverage file of the aligments against the GRCh38 reference genome Are you referring to regions that are hard to align r…
Comment: filters used in mutation discovery from RNAseq data
by
GenoMax
152k
One line questions are never a good way to describe what you are trying to do and without that information you are not likely to get any us…
Answer: martCheck - Error - You must provide a valid Mart object - for running HoneyBADG
by
mete.han.celebi
• 0
Hello everyone, I have fixed the issue. Here how I fixed: mart.obj <- useMart( biomart = "ENSEMBL_MART_ENSEMBL", da…
Answer: How to Specify Power Parameter for Adjacency in modulePreservation() (WGCNA)
by
andres.firrincieli
3.9k
multiData can contain your adjacency matrices. Then in `modulePreservation()` set `dataIsExpr = FALSE`
Comment: Should matched samples (not paired) be included in the DESeq2 design model?
by
i.sudbery
21k
No thats not what I mean. When you run DESeq, if fits values to each of the coeffients that you specify. You then compute p-values on som…
Comment: Single-cell RNA Sequencing - transcript abundance estimation using Alevin-Fry
by
wooh
• 0
Thank you that makes sense. When previously doing this it seemed the quantification result had assigned exact equal values of two transcrip…
Comment: Trajectory Analysis scRNA-seq with one cell type and two developmental stages
by
npont
▴ 10
Yes I would agree for clustering, but the way I define my cell type is not based on clustering: I define cells as being of my type of inter…
Comment: Should matched samples (not paired) be included in the DESeq2 design model?
by
marieke
• 0
Ah yes, looking at the PCA makes sense, thanks! I'm not sure I understand your last paragraph, though. With 'running tests', do you mean r…
Comment: Trouble Using GEO Files with Seurat
by
Jamie
• 0
Thank you so much @antonioggsousa! You've helped me a lot!
Comment: Trajectory Analysis scRNA-seq with one cell type and two developmental stages
by
Bastien Hervé
6.4k
It makes sense to me to give it a try like this, however along the way depending on your batch effect correction or your pseudotime sanity …
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