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122,199 results • Page
630 of 2444
Sort: Rank
Rank
Views
Votes
Replies
2
votes
3
replies
2.1k
views
Converting .delta file from NUCMER to format accepted by IGV? (.bam/.vcf)
NUCMER
IGV
SAMtools
MUMMER
4.4 years ago by
Joanna
• 0
2
votes
4
replies
3.1k
views
16S rRNA merge forward and reverse primers
16S
taxonomy
rRNA
microbiology
primers
4.0 years ago by
ddowlin
▴ 70
5
votes
5
replies
9.6k
views
7 follow
Mirror Manhattan Plot
qqman
manhattan
GWAS
plot
R
updated 4.4 years ago by
Jimbou
▴ 960 • written 8.8 years ago by
jennysjaarda
▴ 10
0
votes
1
reply
1.1k
views
Flagging Blacklisted regions instead of deleting them.
regions
Blacklisted
updated 4.4 years ago by
seidel
11k • written 4.4 years ago by
akshitiz09
▴ 20
0
votes
12
replies
7.5k
views
DiffBind 3.2 error
DiffBind
R
ChIP-seq
updated 4.4 years ago by
Learner
• 0 • written 4.5 years ago by
Huang Zhihao
• 0
1
vote
0
replies
1.4k
views
What does gene ratio and count mean as output of the gseGO function?
clusterProfiler
RNAseq
4.4 years ago by
Wocher33
▴ 10
5
votes
6
replies
3.0k
views
issue with visualising cladogram/phylogenetic tree with multiple sequence alignment data in R?
r
bioconductor
alignment
R
sequencing
updated 4.4 years ago by
Biodeer
▴ 50 • written 6.4 years ago by
Kumar
▴ 120
0
votes
1
reply
699
views
Sample size required
statistics
updated 4.4 years ago by
ATpoint
90k • written 4.4 years ago by
Lital
• 0
0
votes
2
replies
1.2k
views
Comparing two ratios between two experiments.
comparisons
phosphoproteomics
ratios
4.4 years ago by
Vanish007
▴ 50
1
vote
2
replies
1.4k
views
Metatrancriptomics : Pfam Database for viralVerify after rnaviralspades running
Viralverify
database
Pfam
HMMer
4.4 years ago by
bioAddict
• 0
2
votes
1
reply
1.0k
views
Why is age and sex added as covariates in GWAS regressions?
GWAS
updated 4.4 years ago by
Kevin Blighe
★ 90k • written 4.4 years ago by
FeedMeDumplings
• 0
1
vote
2
replies
2.6k
views
[R] UpSetR - How to make UpSetPlot only show the highest level interactions?
r
upsetr
upsetplots
updated 4.4 years ago by
Basti
★ 2.1k • written 4.4 years ago by
Michael
▴ 10
7
votes
4
replies
1.4k
views
How to extract variants falling in a genomic window from a VCF?
vcf
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
francois
▴ 90
1
vote
2
replies
1.5k
views
missing REF and ALT in vcf
REF
SNP
VCF
ALT
4.4 years ago by
raalsuwaidi
▴ 110
1
vote
0
replies
998
views
plot Roary results for oan genome analysis
R
Roary
updated 2.4 years ago by
Ram
45k • written 4.4 years ago by
sharmatina189059
▴ 110
0
votes
1
reply
1.5k
views
Tool:
Compi: Application Framework for Portable Computational Pipelines
pipeline
workflow-management-system
docker
updated 2.4 years ago by
Ram
45k • written 6.1 years ago by
Hugo
▴ 400
0
votes
2
replies
1.4k
views
Wobbly average GC profile spanning entire R1 read length; what the cause and is it bad
fastq
qc
4.4 years ago by
William
★ 5.4k
0
votes
1
reply
811
views
somatic variant calling
Variant
calling
updated 4.4 years ago by
ATpoint
90k • written 4.4 years ago by
Elisa
• 0
6
votes
7
replies
4.1k
views
Extract CDS from maker gff
CDS
maker2
annotation
gff
updated 2.7 years ago by
lieven.sterck
16k • written 4.4 years ago by
Sarah
▴ 60
0
votes
0
replies
1.1k
views
News:
FINAL CALL :: Online Course - A Practical Introduction to NGS Data Analysis (July 14-16, 2021)
NGS
workshop
updated 2.7 years ago by
Ram
45k • written 4.4 years ago by
David Langenberger
11k
1
vote
8
replies
3.7k
views
unable to impute with beagle after filtering VCF table using vcftools
genomics
bioingormatics
vcftools
beagle
updated 4.3 years ago by
Nai
▴ 50 • written 4.6 years ago by
ziv_attia
• 0
5
votes
4
replies
1.6k
views
orthology enrichment
orthology
updated 16 months ago by
Ram
45k • written 4.4 years ago by
isha.lily20
▴ 10
0
votes
1
reply
1.3k
views
import PCA data into R as dataset to plot
PCA
updated 4.4 years ago by
Ram
45k • written 4.4 years ago by
sara_johem
• 0
0
votes
1
reply
1.2k
views
How can I use a short sequence as a probe to fish out sequences have the same part out from raw illumina paired reads files?
rna
paired
updated 4.4 years ago by
swbarnes2
15k • written 4.4 years ago by
wang-yanfang
• 0
3
votes
2
replies
2.8k
views
Flow cytometry and Cytof data analysis
Cytof
data
analysis
flow
cytometry
4.4 years ago by
rashmirao962
▴ 10
0
votes
0
replies
756
views
adding annotations to ggmsa() in R
R
ggplot
cran
msa
ggmsa
4.4 years ago by
noodle
▴ 650
0
votes
2
replies
971
views
Survival analysis of data obtained from Broad GDAC Firehouse
GDAC
updated 4.3 years ago by
Ram
45k • written 4.4 years ago by
jyotsnap
• 0
5
votes
6
replies
2.6k
views
Difference in BLAST and eggNOG
blast
eggnog
phylogenomics
updated 4.4 years ago by
Ram
45k • written 4.4 years ago by
Shaurya
• 0
20
votes
9
replies
7.6k
views
6 follow
What is the difference between SNP and a mutation ?
SNP
Mutation
updated 4.4 years ago by
4galaxy77
2.9k • written 4.4 years ago by
QAZ
▴ 20
0
votes
0
replies
598
views
coo2cmap
xlabel
gcMapExplorer
coo2cmap
4.4 years ago by
Oleczkaff
• 0
0
votes
1
reply
1.6k
views
Exception in thread "main" htsjdk.samtools.SAMFormatException: Error parsing SAM header. @RG line missing SM tag.
picard
VCF
BAM
updated 4.4 years ago by
Pierre Lindenbaum
166k • written 4.4 years ago by
Flexogore
▴ 10
0
votes
2
replies
2.5k
views
Removing alternate alleles from .vcf
next-gen
updated 4.4 years ago by
zjardyn
• 0 • written 6.8 years ago by
ucbtsm8
▴ 20
0
votes
0
replies
589
views
Mauve: "failed getting file size: value too large for defined data type"
Mauve
4.4 years ago by
Ak
▴ 60
3
votes
2
replies
2.5k
views
Probe annotation file for microarray platform MoGene-1_0-st-v1
MoGene-1_0-st-v1
affymetrix
probe
annotation
microarray
4.2 years ago by
Pranshu Mehra
• 0
5
votes
4
replies
3.8k
views
inflated QQ-PLOT
QQ-plot
inflation
plink
GWAS
4.2 years ago by
putty
▴ 40
0
votes
1
reply
1.3k
views
How to construct a Circos plot?
NGS
updated 4.4 years ago by
Mehmet
▴ 820 • written 4.4 years ago by
eennadi
▴ 40
2
votes
7
replies
4.8k
views
FeatureCounts Output contains gene_id or transcript_id?
biomaRt
DESeq
FeatureCounts
Annotation
4.4 years ago by
Bane
▴ 30
6
votes
2
replies
3.4k
views
guppy graphic card
sequencing
nanopore
guppy
cuda
updated 4.4 years ago by
c2997108
▴ 30 • written 4.8 years ago by
francofer
▴ 10
1
vote
8
replies
3.0k
views
Visualization of RNA-SEQ Analysis
RNA-Seq
sequence
visualization
next-gen
updated 4.4 years ago by
Carlo Yague
9.0k • written 4.4 years ago by
ashwing.kofficial
▴ 10
1
vote
1
reply
1.3k
views
Total Alignment: 0 /results of featureCounts RNA-Seq
Nanopore
featureCounts
HG38
Rna-Seq
4.4 years ago by
santos48
▴ 40
0
votes
0
replies
1.3k
views
Choosing an outgroup for analyses with OrthoFinder
orthologs
phylogeny
outgroup
orthofinder
4.4 years ago by
Dunois
★ 2.9k
4
votes
13
replies
3.1k
views
coverage vector file formats in R
ChIP-Seq
vectors
file_formats
coverage
R
updated 4.3 years ago by
Dunois
★ 2.9k • written 4.4 years ago by
wrab425
▴ 50
0
votes
1
reply
958
views
Stringtie. Issue running prepDE.py
prepDE.py
stringtie
updated 4.4 years ago by
Kevin Blighe
★ 90k • written 4.4 years ago by
gonmola
• 0
2
votes
1
reply
2.5k
views
Appropriate statistical test for comparing two samples in single-cell RNAseq
monocle3
expression
differential
single-cell
rna-seq
updated 4.4 years ago by
ATpoint
90k • written 4.4 years ago by
gundalav
▴ 380
0
votes
1
reply
1.5k
views
Histogram of Paired End Fragment Lengths
numpy
python
histogram
updated 4.4 years ago by
liorglic
★ 1.5k • written 4.4 years ago by
ss3943
• 0
1
vote
1
reply
2.3k
views
what is the meaning of --dta paremeter used in the Hisat2 alignment?
Hisat2
updated 4.4 years ago by
Ram
45k • written 4.4 years ago by
mathavanbioinfo
▴ 80
3
votes
1
reply
1.5k
views
Calculate coverage
coverage
4.4 years ago by
daewowo
▴ 80
0
votes
3
replies
3.6k
views
How to Install EasyCodeML on OSX
easycodeml
selection
codeml
Java
OSX
updated 4.4 years ago by
Biodeer
▴ 50 • written 4.5 years ago by
kacollier
▴ 30
2
votes
2
replies
3.1k
views
Using Kallisto with unsupported single tech (Edited)
Kallisto
updated 4.4 years ago by
C_sinensis
▴ 30 • written 4.4 years ago by
Shawn
▴ 20
2
votes
6
replies
2.7k
views
sequencing adapter/ index when mixing two library preparation kit
adapter
RNA-Seq
illumina
index
updated 4.4 years ago by
swbarnes2
15k • written 4.4 years ago by
cwwong13
▴ 40
122,199 results • Page
630 of 2444
Recent Votes
Answer: Midpoint rooting IQTREE newick file moves node support around
Answer: Subsetting before QC in Spatial Transcriptomics
Answer: Feature Counts vs Salmon quantification
Comment: Feature Counts vs Salmon quantification
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Comment: Comparison of different RNAseq data sets
Comment: ID unifiying across different datasets
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Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Arup Ghosh
3.5k
Do you have the index1 and index2 files? The file structure should be like ```text Sample1_ATAC/ Sample1_S1_L001_R1_001.fastq.gz …
Comment: Subsetting before QC in Spatial Transcriptomics
by
Kent
▴ 30
Hi Kevin, Thanks for the detailed explanation. Due to the characteristics of the datasets, we initially used very lenient quality control…
Comment: Midpoint rooting IQTREE newick file moves node support around
by
Luca Arbore
▴ 10
Thank you very much Kevin, it worked!
Comment: ID unifiying across different datasets
by
GenoMax
154k
In this case the entry notes that this is likely the product of a pseudogene: https://www.uniprot.org/uniprotkb/Q5VTE0/entry and existence …
Comment: Comparison of different RNAseq data sets
by
DrSmad
▴ 10
Each lab contributes both control and LPS. Example, for cell line A_lab1 did and analysis on control and LPS-6h. Cell line B_lab2 did contr…
Comment: ID unifiying across different datasets
by
zizigolu
★ 4.4k
sorry, why some gene names are often lacking though the Uniprot ID is still valid (using biomart)?
Comment: snpEff: Unsupported structural variant types
by
shpak.max
▴ 70
Unfortunately, while it ran without a problem initially, when I checked the run screen today, I saw the following error message (and unlike…
Comment: ID unifiying across different datasets
by
GenoMax
154k
You can use the [**ID mapping tool**][1] from UniProt site (third ID did not map from the list above): From To P68104 ENSG0000015…
Answer: The geo samples is not having sentrix id and sentrix position. But this informat
by
yura.grabovska
▴ 890
Crosspost from related question: https://www.biostars.org/p/9616466/#9616534 ``` ##Using R, illuminaio from Bioconductor library(…
Answer: Finding Sentrix ID in HM450K arrays
by
yura.grabovska
▴ 890
``` ##Using R, illuminaio from Bioconductor library(illuminaio) temp.idat <- readIDAT(file = "200379120087_R02C02_Grn.idat") tem…
Comment: Can i use orthofinder for small protein datasets and not full proteome?
by
michael.ante
★ 4.0k
Do you want to compare them by sequence or by function? For the later, you can use e.g. InterProScan, KoFamScan.
Answer: Can i use orthofinder for small protein datasets and not full proteome?
by
dthorbur
★ 3.2k
If you're just using the tool for clustering purposes, I think OrthoFinder might be a little clunky and would recommend using something lik…
Comment: ID unifiying across different datasets
by
zizigolu
★ 4.4k
Thank you; The problem is let's say in the protein ID column I see `Q5VTE0;P68104;Q05639` here I am sure I should get which `ENSG` for eac…
Comment: How to improving 2-Nucleotide RNA-seq Mapping Accuracy
by
2411110159
• 0
Since we do not have real data yet, I tried to simulate this using strand-specific RNA bisulfite-seq reads (C to T). Read1 corresponds to t…
Comment: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
by
2411110159
• 0
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