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24 results • Page
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News:
The GDC Legacy Archive is retiring soon.
genomic-data-commons
tcga
gdc
12 days ago by
Zhenyu Zhang
★ 1.2k
0
votes
2
replies
432
views
News:
FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
4 days ago by
David Langenberger
11k
1
vote
2
replies
278
views
News:
We created a Bioinformatics Competition for Spatial Transcriptomics: MICOS-EU
cell-clustering
Spatial-transcriptomics
updated 10 days ago by
Weiwen
• 0 • written 11 days ago by
MICOS
▴ 10
3
votes
0
replies
241
views
News:
Webinar “Learning Single-cell Atlases” with Dr. Fabian Theis, author of Scanpy on May 8
Scanpy
Generative-AI
scRNA
Machine-Learning
updated 21 days ago by
Ram
43k • written 21 days ago by
Claire Watson
▴ 60
0
votes
0
replies
222
views
News:
Online course: Meta-analysis in R
Meta-Analysis
Statistics
R
updated 29 days ago by
Ram
43k • written 29 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
204
views
News:
Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo
Individual-Based-Models
Agent-Based-Models
updated 29 days ago by
Ram
43k • written 29 days ago by
carlopecoraro2
★ 2.5k
1
vote
0
replies
200
views
News:
Landscape Genomics course in Switzerland
LFMM
Landscape-Genomics
Sambada
R
Local-Adaptation
15 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
187
views
News:
Master Meta-analysis with R (May 13-16) - Online!
Meta-Analysis
Statistics
R
updated 22 days ago by
Ram
43k • written 22 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
183
views
News:
Goodbye, Slow Code? How BioNumpy can Redefine Python’s Role in Bioinformatics!
BioNumPy
Python
NumPy
updated 17 days ago by
Ram
43k • written 17 days ago by
Chakri
• 0
0
votes
0
replies
164
views
News:
upcoming online statistical courses
Statistics
R
Data-Analysis
updated 26 days ago by
Ram
43k • written 27 days ago by
carlopecoraro2
★ 2.5k
2
votes
0
replies
157
views
News:
course on Landscape Genomics at the EPFL in Lausanne (June 17-21)
LandscapeGenomics
SNPs
LocalAdaptation
GIS
8 days ago by
carlopecoraro2
★ 2.5k
3
votes
0
replies
154
views
News:
Interested in Spatial Omics?
Bioconductor
Spatial-Omics
Spatial-Transcriptomics
updated 24 days ago by
Ram
43k • written 24 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
147
views
News:
Online course: Meta-analysis in R - last 2 seats left
Meta-Analysis
Statistics
R
updated 17 days ago by
Ram
43k • written 17 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
147
views
News:
Cellosaurus release 49 is available
cell
biocuration
line
database
news
knowledgebase
14 days ago by
Amos Bairoch
▴ 120
0
votes
0
replies
147
views
News:
hands-on introduction to generalized linear models (GLMs) using R
Generalized-Linear-Models
GLM
R
updated 23 days ago by
Ram
43k • written 23 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
136
views
News:
Online course: Genome Annotation
Genome-Assembly
Genome-Annotation
18 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
128
views
News:
Online course: An Introduction to Nanopore Direct RNA Sequencing
Nanopore
RNAseq
5 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
126
views
News:
Online course: Introduction to Deep Learning
Python
Deep-Learning
Convolutional-Neural-Network
Machine-Learning
updated 9 days ago by
Ram
43k • written 9 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
125
views
News:
Online course: DNA methylation
Pacbio
Nanopore
DnaMethylation
Evolution
25 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
122
views
News:
Beyond beginner R: Advancing your coding skills - September 16-19
Advanced-Coding
Programming
R
updated 15 days ago by
Ram
43k • written 15 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
121
views
News:
Online course: Bioinformatic analysis of transposable elements
GenomeAssembly
Transcriptomics
TransposableElements
ManualCuration
12 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
119
views
News:
Online course. -Time series analysis and Forecasting in R
Time-Series
Forecasting
R
Stastics
10 days ago by
carlopecoraro2
★ 2.5k
1
vote
0
replies
105
views
News:
Course on Manual Genome Curation
Genome-Assembly
Pretext-View
Manual-Genome-Curation
updated 1 day ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
86
views
News:
New course: Manipulation of NGS Data for Genomic and Population Genetics Analyses
KeepLearning
TScourses
2 days ago by
Transmitting Science communication
▴ 70
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Recent Votes
C: How can I perform Differential expression analysis with just one control and one
C: How can I perform Differential expression analysis with just one control and one
C: How can I perform Differential expression analysis with just one control and one
How can I perform Differential expression analysis with just one control and one cancer sample?
Comment: scRNAseq Differential expression analysis
Comment: scRNAseq Differential expression analysis
Comment: scRNAseq Differential expression analysis
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Recent Replies
Comment: Overlapping Ranges within Granges object
by
Alex Reynolds
35k
Yes, `bedmap` will perform operations on one or two BED files.
Comment: B allele frequency (BAF)
by
aidangcruickshank
▴ 10
Apologies for resurrecting this post, but any idea what that functions "regions" paramater takes? Would it be a GRanges object? The documen…
Comment: How to handle duplicated genes in TCGA data?
by
Ngrin
• 0
Thanks @txema.heredia.The tool I am going to use only accepts gene symbols. This is the reason. So I cannot use ENS IDs.
Answer: Design for complex RNA-Seq experiment using Deseq2
by
swbarnes2
14k
This is a rather small experiment, I don't know that you can establish a meaningful baseline for each patient with a single pre sample, and…
Comment: GG Sankey plot
by
LauferVA
4.2k
@bk11 i changed this comment to an answer. if you disagree please let me know. thanks for sharing your knowledge. VAL
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
Thanks for the input. Unfortunately, that didn't help either. I appreciate any other tips. Thank you
Answer: GG Sankey plot
by
bk11
★ 2.5k
You need to change your data table into a 'long' format. You can do something like this- GOs_childs_recursive <- GOs_childs_recursive …
Answer: Trimming tool
by
ntsopoul
▴ 60
I use Trim Galore which automatically recognizes adaptors. https://github.com/FelixKrueger/TrimGalore Here is the script I am using for…
Answer: Trimming tool
by
GenoMax
142k
There are plenty. `bbduk.sh` from BBMap suite (https://jgi.doe.gov/data-and-tools/software-tools/bbtools/bb-tools-user-guide/bbduk-guide/ )…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
bk11
★ 2.5k
Please check out [in this link.][1] [1]: https://github.com/jokergoo/ComplexHeatmap/issues/349
Comment: Reconstruction of locus, order contigs
by
dthorbur
★ 2.0k
[Here](https://www.biostars.org/p/9544689/) is a forum post that may answer your question.
Comment: how to treat the replicates while performing WGCNA
by
andres.firrincieli
3.6k
> 1) I do not want to merge the MEs rather I asked about replicates, as > some replicates of same sample are showing different behavior for…
Comment: How to systematically check if a bam file is truncated
by
alanh
▴ 170
For more details about what `samtools quickcheck` actually checks for, add a few `-v`'s to the command line. $ samtools quickcheck -…
Comment: How to handle duplicated genes in TCGA data?
by
Zhenyu Zhang
★ 1.2k
Second what is said above, ensembl_id is the unique identifier. As a good bioinformatics habit, always use unique identifier for your anal…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
It doesn't work. The annotation labels are still in a default fontsize. I cant find a way to set the fontsize.
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