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News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 3 months ago by 2.8k • written 7.4 years ago by 100k
0
votes
0
replies
84
views
News: Course on Manual Genome Curation
Genome-Assembly Pretext-View Manual-Genome-Curation
updated 15 hours ago by 43k • written 21 hours ago by ★ 2.5k
0
votes
0
replies
85
views
News: New course: Manipulation of NGS Data for Genomic and Population Genetics Analyses
KeepLearning TScourses
2 days ago by Transmitting Science communication ▴ 70
0
votes
2
replies
426
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
3 days ago by David Langenberger 11k
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
2
votes
0
replies
155
views
News: course on Landscape Genomics at the EPFL in Lausanne (June 17-21)
LandscapeGenomics SNPs LocalAdaptation GIS
7 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 8 days ago by 43k • written 8 days ago by ★ 2.5k
0
votes
0
replies
119
views
News: Online course. -Time series analysis and Forecasting in R
Time-Series Forecasting R Stastics
9 days ago by carlopecoraro2 ★ 2.5k
1
vote
2
replies
277
views
News: We created a Bioinformatics Competition for Spatial Transcriptomics: MICOS-EU
cell-clustering Spatial-transcriptomics
updated 10 days ago by • 0 • written 11 days ago by ▴ 10
0
votes
0
replies
120
views
News: Online course: Bioinformatic analysis of transposable elements
GenomeAssembly Transcriptomics TransposableElements ManualCuration
12 days ago by carlopecoraro2 ★ 2.5k
1
vote
2
replies
1.2k
views
News: The GDC Legacy Archive is retiring soon.
genomic-data-commons tcga gdc
12 days ago by Zhenyu Zhang ★ 1.2k
0
votes
0
replies
146
views
News: Cellosaurus release 49 is available
cell biocuration line database news knowledgebase
14 days ago by Amos Bairoch ▴ 120
0
votes
0
replies
122
views
News: Beyond beginner R: Advancing your coding skills - September 16-19
Advanced-Coding Programming R
updated 14 days ago by 43k • written 15 days ago by ★ 2.5k
0
votes
0
replies
182
views
News: Goodbye, Slow Code? How BioNumpy can Redefine Python’s Role in Bioinformatics!
BioNumPy Python NumPy
updated 16 days ago by 43k • written 16 days ago by • 0
0
votes
0
replies
144
views
News: Online course: Meta-analysis in R - last 2 seats left
Meta-Analysis Statistics R
updated 17 days ago by 43k • written 17 days ago by ★ 2.5k
0
votes
0
replies
136
views
News: Online course: Genome Annotation
Genome-Assembly Genome-Annotation
18 days ago by carlopecoraro2 ★ 2.5k
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 20 days ago by 43k • written 21 days ago by ▴ 60
0
votes
0
replies
187
views
News: Master Meta-analysis with R (May 13-16) - Online!
Meta-Analysis Statistics R
updated 21 days ago by 43k • written 21 days ago by ★ 2.5k
0
votes
0
replies
147
views
News: hands-on introduction to generalized linear models (GLMs) using R
Generalized-Linear-Models GLM R
updated 22 days ago by 43k • written 23 days ago by ★ 2.5k
3
votes
0
replies
154
views
News: Interested in Spatial Omics?
Bioconductor Spatial-Omics Spatial-Transcriptomics
updated 23 days ago by 43k • written 23 days ago by ★ 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
164
views
News: upcoming online statistical courses
Statistics R Data-Analysis
updated 25 days ago by 43k • written 26 days ago by ★ 2.5k
0
votes
0
replies
222
views
News: Online course: Meta-analysis in R
Meta-Analysis Statistics R
updated 28 days ago by 43k • written 29 days ago by ★ 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 28 days ago by 43k • written 29 days ago by ★ 2.5k
0
votes
0
replies
211
views
News: Final Call - Bioinformatics Pipeline Development with Nextflow (May 27-29, 2024)
workshop RNA-seq nextflow DNA-seq
updated 4 weeks ago by 43k • written 4 weeks ago by 11k
0
votes
0
replies
174
views
News: Deadline Approaching: PETs for Public Health Challenge
privacy public-health-challenge
updated 4 weeks ago by 43k • written 4 weeks ago by ▴ 380
0
votes
0
replies
203
views
News: Online course: Network Analysis in R
NetworkAnalyis R
4 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
212
views
News: Online course: Meta-analysis in R
Meta-Analysis R
updated 5 weeks ago by 43k • written 5 weeks ago by ★ 2.5k
1
vote
0
replies
154
views
News: Online Live Course: Introduction to Machine Learning in R
Rstats TScourses Rlang Rproject
updated 5 weeks ago by 43k • written 5 weeks ago by ▴ 70
2
votes
0
replies
149
views
News: Online Course Generalised Additive Mixed Models (GAMM): modelling space-time correlation structures
GAMM Rlang Rstats Rproject
updated 5 weeks ago by 43k • written 5 weeks ago by ▴ 70
2
votes
0
replies
148
views
News: Online Course Introduction to Network Analysis and Modelling
Python Network-Analysis
updated 5 weeks ago by 43k • written 5 weeks ago by ▴ 70
2
votes
0
replies
138
views
News: Course Functional Programming with R
Rstats TScourses Rproject KeepLearning Rlang
5 weeks ago by Transmitting Science communication ▴ 70
12
votes
2
replies
511
views
News: 8th Berlin Summer School in NGS Data Analysis (June 10-14, 2024) - already half booked
Workshop RNA-Seq DNA-Seq Illumina
5 weeks ago by David Langenberger 11k
2
votes
0
replies
149
views
News: Online course: Genome Annotation
Genome-Assembly RNA-seq Genome-Annotation
updated 5 weeks ago by 43k • written 5 weeks ago by ★ 2.5k
0
votes
0
replies
145
views
News: Online course: Multivariate Data Analysis with R and vegan
Multivariate-Statistics vegan R
updated 5 weeks ago by 43k • written 5 weeks ago by ★ 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
8
votes
2
replies
843
views
News: FINAL CALL - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (May 6-8, 2024 in Berlin)
single-cell sequencing
6 weeks ago by David Langenberger 11k
0
votes
0
replies
174
views
News: Online course: Food Traceability Using Genomic Tools
Nanopore Genomic-Tools Illumina Food-Traceability
updated 6 weeks ago by 43k • written 6 weeks ago by ★ 2.5k
0
votes
0
replies
169
views
News: Online course: Eukaryotic Metabarcoding
Metabarcoding Biodiversity R eDNA
6 weeks ago by carlopecoraro2 ★ 2.5k
3
votes
2
replies
698
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
6 weeks ago by Johannes W. Dietrich • 0
0
votes
0
replies
230
views
News: Online course: Reproducibility in Bioinformatics
Singularity Version-Control Docker Containers
updated 7 weeks ago by 43k • written 7 weeks ago by ★ 2.5k
0
votes
0
replies
193
views
News: Online course: Analysis of Prokaryotic Pangenomes (Last call)
Prokaryotic Bacterial-Genomics Pangenomics
updated 7 weeks ago by 43k • written 7 weeks ago by ★ 2.5k
0
votes
0
replies
196
views
News: Online course: Introduction to GWAS
GWAS Imputation StatisticalPower
7 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
183
views
News: Online course: Adaptation Genomics
StructuralVariants Selection AdaptationGenomics PopulationStructure
8 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
176
views
News: Online course: Analysis of Prokaryotic Pangenomes
BacterialGenomics Pangenomics
8 weeks ago by carlopecoraro2 ★ 2.5k
0
votes
0
replies
257
views
News: Online course on Genome Assembly and Annotation (1 seat left)
Galaxy GenomeAssembly GenomeAnnotation
9 weeks ago by carlopecoraro2 ★ 2.5k
1
vote
0
replies
200
views
News: NCBI's ClinVar now accepting somatic variation data
variation NCBI somatic-variants ClinVar
9 weeks ago by PeterC_NCBI ▴ 410
1
vote
1
reply
296
views
News: EMBL Course Hands-on course for sample preparation and data analysis in proteomics
EMBLProteomics
updated 9 weeks ago by • 0 • written 3 months ago by ▴ 10
1
vote
0
replies
226
views
News: Learn how to create robust bioinformatics pipelines for reproducible and comparable NGS analyses
nextflow pipeline workshop
9 weeks ago by David Langenberger 11k
0
votes
0
replies
177
views
News: Online course: Genome Assembly and Annotation - 3 seats left
Genome-Assembly Galaxy Genome-Annotation
updated 9 weeks ago by 43k • written 9 weeks ago by ★ 2.5k
760 results • Page 1 of 16
Recent Votes
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
Answer: Details on salmon index
Comment: zero TPM for many gene including housekeeping when using kallisto
Sequence Alignment from Scratch with BWA
Answer: mitochondrial genome assembly pipeline
Comment: Help! Reconstruction of locus, order contigs
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
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Scholar to Peter 6.0k
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Recent Replies
Comment: Help! Reconstruction of locus, order contigs by dthorbur ★ 2.0k
I don't understand your comment. What do you mean? > my idea is not to have to write it down If you have an alignment already, why can't…
Comment: Help! Reconstruction of locus, order contigs by GenoMax 142k
Please use `ADD REPLY/ADD COMMENT` when responding to existing content. `SUBMIT ANSWER` is for new answers to the original question.
Comment: Details on salmon index by Rob 6.6k
Hi Lorenzo, That is correct. The initial version of salmon used the RapMap index explained above. When we published the selective align…
Comment: Help! Reconstruction of locus, order contigs by BATMAN • 0
Thanks for your reply, my idea is not to have to write it down. What I have is an alignment of the .gbk from the progressiveMauve. It would…
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences? by Gabriel R. ★ 2.9k
I did some digging aroumd, no static binary. Plus it seems you need to roll your own program.
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences? by Gabriel R. ★ 2.9k
We tested it, however, it does not seem to produce a fast a file of the results or anything that we can easily parse. It produces a CIGAR a…
Comment: zero TPM for many gene including housekeeping when using kallisto by ashkan ▴ 160
@atpoint yes but for example for the kallisto results I have expression for 2080 genes (transcripts) and the rest are 0 but in my STAR resu…
Comment: In one PCA plot, can I calculate the percentage of different factors that contri by marco.barr ▴ 130
great team work! why can't you access and do the calculation for the other components too? can't you extract the information from the other…
Comment: zero TPM for many gene including housekeeping when using kallisto by ATpoint 82k
Yes, but this is what I am saying: GAPDH in human has at least 6 annotated transcripts. Have you looked at all of them? Maybe that particul…
Comment: zero TPM for many gene including housekeeping when using kallisto by ashkan ▴ 160
@atpoint these are from PBMC. no they are different genes. for example ENST00000229239.10 is GAPDH. in STAR I got a lot of reads aligned …
Comment: zero TPM for many gene including housekeeping when using kallisto by ashkan ▴ 160
@dariober: I have to use kallisto for our downstream pipeline.
Comment: zero TPM for many gene including housekeeping when using kallisto by ATpoint 82k
Which celltype is this? Are these transcripts of the same gene, and of which gene?
Comment: zero TPM for many gene including housekeeping when using kallisto by ashkan ▴ 160
@atpoint the question is updated. the first command shows how the index is built.
Comment: Help! Reconstruction of locus, order contigs by dthorbur ★ 2.0k
Is the *de novo* annotation required for each contig? Reconstructing homologous regions in many genomes can be tricky regardless, but is es…
Comment: In one PCA plot, can I calculate the percentage of different factors that contri by diqixiaoyaoer ▴ 20
You can have a look on my answer. I have post it below.
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