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81 results • Page
2 of 2
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Views
Votes
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0
votes
0
replies
149
views
select set of intervals that cover a genomic region
GRanges
bed
4 days ago by
ntsopoul
▴ 60
0
votes
0
replies
147
views
sci-RNA-seq
cell
single
seurat
sci-rna-seq
counts
3 days ago by
kilcdincer
▴ 10
0
votes
0
replies
147
views
Understanding behaviour of SCTransform in Seurat
Seurat
scRNASeq
normalization
updated 3 days ago by
GenoMax
142k • written 3 days ago by
yura.grabovska
▴ 90
0
votes
0
replies
144
views
qPCR gene expression data analysis
qPCR
geneexpression
anova
4 days ago by
ebertomeup
• 0
0
votes
1
reply
143
views
Wrong ZYGOSITY by ensembl vep on DeepVariant vcf file
annotation
vcf
vep
zygosity
deepvariant
5 days ago by
asalimih
▴ 60
0
votes
0
replies
139
views
How can i use ESM-1v ?
VEP
ESM-1v
3 days ago by
Meto
• 0
0
votes
0
replies
136
views
Tera-scale metagenomic coassembly tool
co-assembly
Metagenomics
2 days ago by
Moinuddin
• 0
0
votes
0
replies
134
views
How do I quantify the non-coding transcripts that I have generated after using CPAT,PLEK, and BLAST altogether?
transcript
Quantify
non-coding
3 days ago by
Varsha
• 0
0
votes
0
replies
130
views
Buzzled by retrieving metadata on bioprojects for an organism using "rentrez" package
R
updated 2 days ago by
Pierre Lindenbaum
161k • written 2 days ago by
Mohamed Samir
▴ 20
0
votes
1
reply
121
views
PCA Visualization error in R - arguments imply differing number of rows
SNPs
PCA
GBS
LINUX
r
updated 18 hours ago by
zx8754
11k • written 23 hours ago by
Ali
• 0
0
votes
0
replies
116
views
Is there a real ground truth for CNV data?
CNV
6 days ago by
jennyp0706
• 0
0
votes
0
replies
115
views
DOCK6 installation on MacOS M1
installation
troubleshooting
DOCK6
updated 5 days ago by
GenoMax
142k • written 5 days ago by
Rodolfo Adrián
• 0
0
votes
0
replies
114
views
Is it okay to assemble my 12 metatranscriptome samples with Trinity separately?
trinity
metatranscriptome
5 days ago by
jway
• 0
0
votes
0
replies
108
views
problems in installing rDock
rDock
updated 7 hours ago by
Ram
43k • written 1 day ago by
Rodolfo Adrián
• 0
0
votes
1
reply
108
views
GO analysis: Indicate genes corresponding to the pathway
GeneOntoloy
GO
R
updated 14 hours ago by
marco.barr
▴ 130 • written 16 hours ago by
sooni
▴ 20
0
votes
1
reply
105
views
Functional enrichment analysis for unique gene IDs
RNA-SEQ
updated 20 hours ago by
ATpoint
82k • written 22 hours ago by
Pegasus
▴ 100
0
votes
0
replies
104
views
Why the shape of RCS is contradictory to the p value for nonlinearity.
RCS
ggplot2
ggplot
R
updated 6 days ago by
GenoMax
142k • written 6 days ago by
Dude
• 0
0
votes
0
replies
100
views
handling bio replicates for chromHMM
replicates
chromHMM
1 day ago by
Hasan_Daaboul
• 0
0
votes
0
replies
99
views
ReactomeGSA
ReactomeGSA
5 days ago by
Shaimaa Gamal
▴ 10
0
votes
0
replies
99
views
NEURON, Brian2, NEST, or PyNN
NEST
NEURON
PyNN
Brian2
6 days ago by
brunofelicianodeomena
• 0
0
votes
0
replies
98
views
In what situations is 'outer' typically used when using anndata.concat()?
concat
anndata
scanpy
6 days ago by
Spring
• 0
0
votes
0
replies
94
views
How to deal with possibly important predictors omitted during the building of an OLS multivariant linear regression model?
multivariant-linear-regression
updated 6 hours ago by
Ram
43k • written 18 hours ago by
JorgeVallejo
▴ 20
0
votes
0
replies
91
views
Tool for within-sample ligand-receptor analysis (bulk RNA-seq) ?
cell-cell
communication
ligand-receptor
self-regulation
1 day ago by
DGTool
▴ 20
0
votes
0
replies
86
views
Challenges of Affymetrix probe IDs for grouping similar genes to calculate their mean
R
Mean
Affymetrix
Probes
Grouping
1 day ago by
Maryam
• 0
0
votes
1
reply
85
views
Kraken2 Custom Database non-deterministic results
Metagenomics
kraken2
updated 7 hours ago by
GenoMax
142k • written 7 hours ago by
Bjorn
• 0
0
votes
1
reply
79
views
How to hide label in layout file of MCscan (python version)
MCscan
updated 13 hours ago by
GenoMax
142k • written 17 hours ago by
jinyi
• 0
0
votes
0
replies
75
views
transcriptome annotation
annotation
trinity
transcriptome
updated 11 hours ago by
Ram
43k • written 18 hours ago by
Asim Bin Arshad
• 0
0
votes
0
replies
60
views
Is it possible to keep gene_id and gene_name columns using Seurat::Read10X?
Seurat
single-cell
scRNA-seq
updated 10 hours ago by
Ram
43k • written 16 hours ago by
ev97
▴ 20
0
votes
0
replies
60
views
ENCORI or starBase : ceRNA data retrieval using Web API and curl
ceRNA
ENCORI
curl
microRNA
starBase
18 hours ago by
V_Vibes
• 0
0
votes
0
replies
57
views
vcf phasing
beagle
WhatsHap
phasing
12 hours ago by
safeassli
▴ 10
0
votes
0
replies
12
views
Multi-ploid data in ANGSD and NGSadmix
ancestry
diploid
haploid
admixture
51 minutes ago by
Christopher
• 0
81 results • Page
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Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
A: Bcftools merge taking too much time and producing large file
Answer: Kraken2 database
A: Why gene expression data should be log2 transformed?
Answer: Filter Genome for Specific Sites
Answer: Filter Genome for Specific Sites
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Comment: how to treat the replicates while performing WGCNA
by
mavy
▴ 10
Hello I have a quick question, I did as you said , and further added the traits, found the correlation among the modules and the traits us…
Comment: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
ojaswinipandey
• 0
Thank you so much Dave.
Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
Dave Carlson
★ 1.7k
The y axis represents the proportion of the total variance explained by each principal component. It's negative because the value (between…
Comment: Error in using BioSampleParser tool: subscript out of bounds
by
marco.barr
▴ 130
Hi Mohamed, I also thought the same thing but we run the risk of inserting other errors perhaps by modifying the function. I tried but I ha…
Comment: Trimming tool
by
Ram
43k
Please do a few simple Google searches before asking others for help.
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
Ram
43k
This post does not fit the theme of this forum.
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
Ram
43k
Hi, Congratulations but this is not LinkedIn, we are not a place to showcase your professional accomplishments. This does not fall under t…
Comment: Kraken2 Custom Database non-deterministic results
by
GenoMax
142k
Many (most?) programs related to NGS data analysis produce non-deterministic output (unless they explicitly offer an option to produce dete…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
For those samples it appears that raw data was not submitted. Just an assembly. $ esearch -db biosample -query SAMN08009548 | elink -…
Comment: How can I calculate the OS of each patient?
by
Pedro
• 0
**I have already tried this code. listSamples with HNSC cancer and smokers. I need at least one supporting material to find out the survi…
Comment: Filter Genome for Specific Sites
by
Anita
• 0
Great, thank you!
Comment: Filter Genome for Specific Sites
by
Anita
• 0
This is unhelpful and doesn't answer my question.
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
It seems that the authors in this paper have used paired-end sequences only for their analysis, and for that, they would also have used the…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
Thank you so much for helping me out in this! I have used most of the sequences that are found in this table. But, some samples like the…
Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
Looks like the samples are from this project: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA320483&o=acc_s%3Aa This table has the SR…
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