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1,000 results • Page
5 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
2
replies
253
views
WGCNA
PCA
WGCNA
EIGENGENE
8 days ago by
rajasekargutha
▴ 60
4
votes
6
replies
1.4k
views
CompressedGRangesList don't have seqLengths: BiocParallel errors: Error in covRleFromGR(x, weight = weight, ignore.strand = ignore.strand): Seqlength…
gff3
GenomicRanges
ORFik
GenomicFeatures
updated 5 days ago by
GenoMax
141k • written 14 months ago by
Estefania
▴ 30
0
votes
1
reply
206
views
Error when i use EVidenceModeler to do the genome annotation
EVidenceModeler
annotation
genome
updated 9 days ago by
colindaven
6.4k • written 11 days ago by
peanut
• 0
0
votes
3
replies
249
views
BLASTP web- <20aa peptides- interpreting results/ minimum E value?
blast
peptide
blastp
alignment
updated 8 days ago by
GenoMax
141k • written 9 days ago by
neish
• 0
3
votes
5
replies
447
views
Having trouble building VG in Ubuntu
vg
updated 6 days ago by
Ram
43k • written 9 days ago by
ayushm64
• 0
1
vote
5
replies
2.3k
views
Shannon vs Simpson for TCR diversity estimation
TCR
shannon
simpson
updated 9 days ago by
ATpoint
81k • written 5.0 years ago by
CY
▴ 750
1
vote
0
replies
120
views
News:
Online Live Course: Introduction to Machine Learning in R
Rstats
TScourses
Rlang
Rproject
updated 9 days ago by
Ram
43k • written 9 days ago by
Transmitting Science communication
▴ 70
1
vote
0
replies
148
views
DESeq2 comparing timepoints within treatment and account for background control change
RNAseq
DEG
DESeq2
updated 9 days ago by
Ram
43k • written 9 days ago by
ian.will
▴ 30
2
votes
0
replies
113
views
News:
Online Course Generalised Additive Mixed Models (GAMM): modelling space-time correlation structures
GAMM
Rlang
Rstats
Rproject
updated 9 days ago by
Ram
43k • written 9 days ago by
Transmitting Science communication
▴ 70
2
votes
0
replies
111
views
News:
Online Course Introduction to Network Analysis and Modelling
Python
Network-Analysis
updated 9 days ago by
Ram
43k • written 9 days ago by
Transmitting Science communication
▴ 70
1
vote
3
replies
272
views
Merging vcf files with bcftools ([E::get_intv] Failed to parse TBX_VCF, was wrong -p [type] used?)
vcf
tabix
bcftools
updated 3 days ago by
Pierre Lindenbaum
161k • written 9 days ago by
giulia.cosenza
• 0
0
votes
0
replies
101
views
Surrogate variable analysis for paired RNA seq experiment
sva
rnaseq
ruvseq
9 days ago by
nhaus
▴ 300
1
vote
3
replies
258
views
True variants selection
vcf
bcftools
updated 8 days ago by
dthorbur
★ 1.9k • written 9 days ago by
maevalefeuvre
• 0
0
votes
1
reply
151
views
How to reveal real AF of variant if duplicates can't be removed (such as in amplicon-seq)
allele-frequency
amplicon-seq
updated 9 days ago by
Ram
43k • written 9 days ago by
CY
▴ 750
0
votes
0
replies
100
views
Creating a BSgenome data package from a NCBI assembly - Virus
Virus
BSgenomeForge
BSgenome
R
9 days ago by
JirMan
▴ 20
2
votes
6
replies
432
views
KEGG analysis in R
KEGG
clusterProfiler
Zea-mays
8 days ago by
sansan_96
▴ 80
1
vote
1
reply
165
views
Failed to download data from EBI with ascp
EBI
aspera
updated 9 days ago by
GenoMax
141k • written 9 days ago by
biock
▴ 60
0
votes
0
replies
391
views
BETA whether on the same scale when performing rank-based inverse normal transformation on the same type of phenotype data for two cohorts separately…
normal
inverse
transformation
9 days ago by
Isaac
• 0
0
votes
0
replies
101
views
Combining VG graphs
vg
graphs
combine
9 days ago by
AshleeThomson
▴ 70
1
vote
3
replies
307
views
Why is DESeq2 normalization making my top feature have identical values across samples?
DESEQ2
WGCNA
9 days ago by
DNAngel
▴ 250
2
votes
2
replies
278
views
Creating a cytoscape bubble figure
cytoscape
network
GO
9 days ago by
Dave Carlson
★ 1.7k
3
votes
3
replies
322
views
Disrupting a gene interaction network
cytohubba
cytoscape
sequences
mRNA
9 days ago by
george
• 0
3
votes
1
reply
257
views
ClueGO is not showing custom data
ClueGo
Cytoscape
updated 9 days ago by
Scooter
▴ 280 • written 15 days ago by
Nicolas
• 0
2
votes
7
replies
5.1k
views
9 follow
problem with HOMER findMotifsGenome.pl
HOMER
ATAC-Seq
updated 9 days ago by
kaaz
• 0 • written 5.5 years ago by
ste.lu
▴ 80
5
votes
3
replies
303
views
Best genome browser for manual curation of gene structure(s)?
structure
gene
updated 8 days ago by
cmdcolin
★ 3.8k • written 9 days ago by
William
★ 5.3k
1
vote
7
replies
5.0k
views
How do I plot several sns.clustermap heatmaps in a single figure?
python
seaborn
updated 9 days ago by
Wubin
▴ 40 • written 3.4 years ago by
roy.granit
▴ 880
0
votes
1
reply
183
views
Human Methylation Infinum Bead - probe to gene mapping
TCGA
pancan
data
updated 9 days ago by
Zhenyu Zhang
★ 1.2k • written 10 days ago by
shrutidesai0208
• 0
1
vote
4
replies
364
views
Is it just me or has www.ensembl.org been broken for a while?
ensembl
8 days ago by
gene_biostars
• 0
0
votes
0
replies
105
views
Installing SALSA and HIRise scafolding software
scafolding
SALSA
genome-assembly
HIRise
updated 9 days ago by
Ram
43k • written 9 days ago by
Lissa Cruz Saavedra
• 0
0
votes
1
reply
176
views
Extract Di-nucleotide/Tri-Nucleotide substitution frequencies from MSA/VCF file
MSA
substitution
VCFstats
Evolution
VCF
updated 9 days ago by
Pierre Lindenbaum
161k • written 9 days ago by
Saran
▴ 50
0
votes
2
replies
261
views
Abundance Calculation in MetaPhlAn 3: Methodology, TPM or RPKM, and the Treatment of Unclassified Reads
MetaPhlAn
Normalization
RPKM
TPM
7 days ago by
ramin.k2013
• 0
0
votes
0
replies
154
views
Normalization in Metagenomics Sequencing By Total Number of Reads: Pre- or Post-Filtering and the Role of Unclassified Reads
Normalization
Metagenomics
updated 9 days ago by
Ram
43k • written 9 days ago by
ramin.k2013
• 0
1
vote
2
replies
189
views
Finding variants within a subset of a BAM file
variant
calling
updated 9 days ago by
Pierre Lindenbaum
161k • written 9 days ago by
ramiro.barrantes
• 0
0
votes
1
reply
164
views
convert h5ad to rds
single-cell
transcriptome
updated 9 days ago by
bk11
★ 2.3k • written 9 days ago by
lucas.aleixoleal17
• 0
1
vote
2
replies
215
views
Error during demultiplexing by bcl2fastq
bcl2fastq
updated 9 days ago by
GenoMax
141k • written 9 days ago by
daffodil
▴ 10
0
votes
1
reply
158
views
Help with generating annotation database for dog genome to use in ANNOVAR for variant annotation of dog tumor sequences
ANNOVAR
updated 9 days ago by
Pierre Lindenbaum
161k • written 9 days ago by
sainavyav22
• 0
0
votes
1
reply
503
views
Clair3 very low F1 INDEL score
ont
clair3
nanopore
wgs
updated 9 days ago by
yussab
▴ 90 • written 21 months ago by
Satrio
• 0
0
votes
9
replies
554
views
99.9999% of Q30 bases is normal?
RNA-seq
fastp
updated 8 days ago by
LauferVA
4.2k • written 9 days ago by
Aki
▴ 10
0
votes
0
replies
90
views
Issue while using circle_dat function from GOplot in R
GOplot
R
9 days ago by
ckelly96
• 0
1
vote
7
replies
407
views
fastp - can I trim specific adapters only?
trimming
fastp
adapter
9 days ago by
liorglic
★ 1.4k
0
votes
2
replies
180
views
Can't figure out plink --sample-diff
plink
10 days ago by
curious
▴ 750
0
votes
1
reply
5.0k
views
How to compute a one tail (one way) log rank test for survival?
R
survival
hypothesis-testing
log-rank
updated 9 days ago by
jack
• 0 • written 7.5 years ago by
denalitastic
▴ 30
0
votes
1
reply
136
views
Geneious Prime (Consense Sequence)
Consense
Sequence
updated 10 days ago by
GenoMax
141k • written 10 days ago by
Reno
• 0
0
votes
4
replies
228
views
Downsampling long-read BAM files
nanopore
BAM
QC
ONT
downsampling
updated 10 days ago by
GenoMax
141k • written 10 days ago by
eesiribloom
▴ 80
1
vote
2
replies
205
views
convert a seurat object to expressionset
Seurat
9 days ago by
Bine
▴ 60
2
votes
0
replies
105
views
News:
Course Functional Programming with R
Rstats
TScourses
Rproject
KeepLearning
Rlang
10 days ago by
Transmitting Science communication
▴ 70
1
vote
1
reply
159
views
Shared pathways up in disease blood and tissue relative to healthy blood (scRNA-seq)
scRNA-seq
updated 10 days ago by
ATpoint
81k • written 10 days ago by
Lucy
▴ 140
2
votes
4
replies
379
views
Per Base Sequence Content - continuous raise of G%
fastqc
updated 10 days ago by
GenoMax
141k • written 11 days ago by
pl.terzian
• 0
0
votes
0
replies
112
views
Inferring cell identity/genotype in single cells with missing information
cell
seurat
single
score
10 days ago by
txema.heredia
▴ 110
0
votes
2
replies
182
views
fmols for nanopore library loading
nanopore
sequencing
libraryprep
fmol
LSK114
updated 10 days ago by
GenoMax
141k • written 10 days ago by
njornet
▴ 20
1,000 results • Page
5 of 20
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Answer: MEGA Analysis Issue on High-Performance Computer
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Answer: How can I retrieve wheat lysine non-acetylated sequences from the UniProt databa
The majority of the sequences in Trinity ID do not start from start codons. Can the sequences still be used for primer design and validation?
Answer: Cellranger count error: Input FASTQ file ended prematurely
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Comment: MEGA Analysis Issue on High-Performance Computer
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16GB of RAM is nothing. My phone has that. My server has 1TB of RAM, and even that isn't always enough
Comment: MEGA Analysis Issue on High-Performance Computer
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141k
I don't think MEGA supports GPU's: https://www.megasoftware.net/web_help_11/Part_I_Getting_Started/Installing_MEGA/System_Requirements.htm
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You can, if you use RStudio via Docker, for example `bioconductor/bioconductor_docker`. I currently manage many different projects with thi…
Comment: bam merging for archaic samples
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@Pierre Lindenbaum I see. So, I can actually manipulate just one single RG tag at the time with `samtools`? Which flag should I use, or sho…
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161k
RG tag "L9302" is missing the the BAM header. You should have something like this in the BAM header ``` @RG ID:L9302 SM:L9302 ``` may be…
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★ 1.7k
That makes a lot more sense. Thank you.
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Type ``` help("read.idat") ``` and read the example at the bottom of the page, which shows you how to set the `other$Detection` component o…
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Accurately assessing a few QC metrics is trivially easy. Assessing the significance of variants in a clinically responsible way is really…
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14k
If _1 and _2 really are the same library, you should rename the fastqs, or make symlinks, such that they have the same sample name, but dif…
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81k
Just delete the index read files. They just take up space and will never be used.
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14k
Yes. Why wouldn't you use, say, AddOrReplaceReadsGroups?
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Thank you. Decreased the threads to 2 (changed the threads: 2 in the config file; but it was somehow using 4). It did run for sometime but …
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See this section on how to use tximport to import StringTie output for DESeq2 processing: https://bioconductor.org/packages/devel/bioc/vign…
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