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25 results • Page
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News:
8th Berlin Summer School in NGS Data Analysis - Apply Now
variantcalling
DNAseq
illumina
RNAseq
transcriptomics
11 hours ago by
David Langenberger
11k
0
votes
0
replies
63
views
News:
hands-on introduction to generalized linear models (GLMs) using R
Generalized-Linear-Models
GLM
R
updated 6 hours ago by
Ram
43k • written 18 hours ago by
carlopecoraro2
★ 2.5k
3
votes
0
replies
101
views
News:
Interested in Spatial Omics?
Bioconductor
Spatial-Omics
Spatial-Transcriptomics
updated 1 day ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
76
views
News:
Online course: DNA methylation
Pacbio
Nanopore
DnaMethylation
Evolution
2 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
126
views
News:
upcoming online statistical courses
Statistics
R
Data-Analysis
updated 3 days ago by
Ram
43k • written 4 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
184
views
News:
Online course: Meta-analysis in R
Meta-Analysis
Statistics
R
updated 6 days ago by
Ram
43k • written 6 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
170
views
News:
Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo
Individual-Based-Models
Agent-Based-Models
updated 6 days ago by
Ram
43k • written 6 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
170
views
News:
Final Call - Bioinformatics Pipeline Development with Nextflow (May 27-29, 2024)
workshop
RNA-seq
nextflow
DNA-seq
updated 8 days ago by
Ram
43k • written 8 days ago by
David Langenberger
11k
0
votes
0
replies
140
views
News:
Deadline Approaching: PETs for Public Health Challenge
privacy
public-health-challenge
updated 9 days ago by
Ram
43k • written 9 days ago by
polarise
▴ 380
0
votes
0
replies
174
views
News:
Online course: Network Analysis in R
NetworkAnalyis
R
10 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
181
views
News:
Online course: Meta-analysis in R
Meta-Analysis
R
updated 13 days ago by
Ram
43k • written 13 days ago by
carlopecoraro2
★ 2.5k
1
vote
0
replies
126
views
News:
Online Live Course: Introduction to Machine Learning in R
Rstats
TScourses
Rlang
Rproject
updated 13 days ago by
Ram
43k • written 13 days ago by
Transmitting Science communication
▴ 70
2
votes
0
replies
121
views
News:
Online Course Generalised Additive Mixed Models (GAMM): modelling space-time correlation structures
GAMM
Rlang
Rstats
Rproject
updated 13 days ago by
Ram
43k • written 13 days ago by
Transmitting Science communication
▴ 70
2
votes
0
replies
119
views
News:
Online Course Introduction to Network Analysis and Modelling
Python
Network-Analysis
updated 13 days ago by
Ram
43k • written 13 days ago by
Transmitting Science communication
▴ 70
2
votes
0
replies
112
views
News:
Course Functional Programming with R
Rstats
TScourses
Rproject
KeepLearning
Rlang
14 days ago by
Transmitting Science communication
▴ 70
12
votes
2
replies
440
views
News:
8th Berlin Summer School in NGS Data Analysis (June 10-14, 2024) - already half booked
Workshop
RNA-Seq
DNA-Seq
Illumina
14 days ago by
David Langenberger
11k
2
votes
0
replies
115
views
News:
Online course: Genome Annotation
Genome-Assembly
RNA-seq
Genome-Annotation
updated 15 days ago by
Ram
43k • written 15 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
117
views
News:
Online course: Multivariate Data Analysis with R and vegan
Multivariate-Statistics
vegan
R
updated 16 days ago by
Ram
43k • written 16 days ago by
carlopecoraro2
★ 2.5k
1
vote
0
replies
170
views
News:
Landscape Genomics course in Switzerland
LFMM
Landscape-Genomics
Sambada
R
Local-Adaptation
updated 16 days ago by
Ram
43k • written 18 days ago by
carlopecoraro2
★ 2.5k
8
votes
2
replies
766
views
News:
FINAL CALL - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (May 6-8, 2024 in Berlin)
single-cell
sequencing
19 days ago by
David Langenberger
11k
0
votes
0
replies
141
views
News:
Online course: Food Traceability Using Genomic Tools
Nanopore
Genomic-Tools
Illumina
Food-Traceability
updated 21 days ago by
Ram
43k • written 21 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
143
views
News:
Online course: Eukaryotic Metabarcoding
Metabarcoding
Biodiversity
R
eDNA
23 days ago by
carlopecoraro2
★ 2.5k
3
votes
2
replies
553
views
News:
Announcement: Research Topic "Mechanistic, Machine Learning and Hybrid Models of the 'Other' Endocrine Regulatory Systems in Health and Disease", Vol…
mathematical-modelling
endocrinology
ML
systems-biology
machine-learning
26 days ago by
Johannes W. Dietrich
• 0
0
votes
0
replies
198
views
News:
Online course: Reproducibility in Bioinformatics
Singularity
Version-Control
Docker
Containers
updated 27 days ago by
Ram
43k • written 27 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
162
views
News:
Online course: Analysis of Prokaryotic Pangenomes (Last call)
Prokaryotic
Bacterial-Genomics
Pangenomics
updated 27 days ago by
Ram
43k • written 27 days ago by
carlopecoraro2
★ 2.5k
25 results • Page
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Recent Votes
Answer: clustalo - align milions of short seq, memory issue
Comment: downloading genomes in fasta format from accession ids
Comment: PCA plot (Suggestions Needed)
Answer: PCA plot (Suggestions Needed)
PCA plot (Suggestions Needed)
Comment: To get p-values for the TPM
A: Where To Download Pam50 Gene Set?
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Recent Replies
Comment: clustalo - align milions of short seq, memory issue
by
emmanouil.a
▴ 120
Hi GenoMax and Mensur Dlakic, thank you for your feedback. I'm changing approach in the way to work with a smaller number of seq.
Comment: Annovar using R package
by
Pierre Lindenbaum
161k
duplicate of your previous question: https://www.biostars.org/p/9592646/ why using R when there are shell-based tools like VEP ? slivar , …
Comment: Trouble with Pilon installation
by
Lissa Cruz Saavedra
• 0
Hi I am trying to install the software but I didn't find the way to clone from github. Could you help me with the pipeline of instruction…
Comment: Adding CB tag to bam file
by
swbarnes2
14k
I think both these programs are just adding the same tag to every line. I don't think either cares whether it's called RG or CB
Comment: PCA plot (Suggestions Needed)
by
swbarnes2
14k
Even if this was real data, the tiny numbers for the PC1 and PC2 indicate that the differences between the samples are all absolutely tiny.…
Comment: Creating Synthetic Sequences for a ML Model
by
biochugs
• 0
Thanks for the input. I'll continue to think of more ideas that may be achievable.
Comment: PCA plot (Suggestions Needed)
by
Jeremy
▴ 890
You could also try kernel PCA, which is a non-linear form of PCA, although this will be more time-consuming.
Comment: Troubleshooting RNA-seq data with DNA contamination
by
DKA
▴ 40
I have unstranded RNA-seq data. Please share the tool with me, if you do not mind.
Comment: PCA plot (Suggestions Needed)
by
Mensur Dlakic
★ 27k
Everything that @f1f58aed said, plus that there may be no data manipulation that will give you the clusters you expected. Sometimes there a…
Answer: Creating Synthetic Sequences for a ML Model
by
Mensur Dlakic
★ 27k
It is a good idea, though I don't see how it would work in practice. I think you will encounter at least one additional problem on top of …
Answer: PCA plot (Suggestions Needed)
by
Jeremy
▴ 890
Right now, the WT samples are clustering together, but you have one mutant sample off by itself, which could be an outlier. How did you sc…
Comment: Adding CB tag to bam file
by
GenoMax
141k
@yokofakun had written this: https://www.biostars.org/p/336965/ https://github.com/ruqianl/appendCB may also be useful.
Comment: Troubleshooting RNA-seq data with DNA contamination
by
GenoMax
141k
Please post information about your tool as a `tools` category post. Don't wait/ask other users to ask you.
Comment: Adding CB tag to bam file
by
Maria
• 0
Sorry for the delay in my answer, I got sidetracked. I am using ```samtools addreplacerg -r "@RG\tID:$cell" -o $cell.bam -h $LINE``` bu…
Answer: Troubleshooting RNA-seq data with DNA contamination
by
haibol2017
▴ 10
We just developed a R package to tackle this problem. Do you have stranded or unstranded RNA-seq data contaminated with gDNA? If you wou…
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