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645 results • Page 7 of 13
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News: FINAL CALL - 'Introduction to NGS Data Analysis' course in Munich, October 23 - 25
NGS RNA-Seq Workshop DNA-Seq
updated 11 months ago by 44k • written 4.7 years ago by 11k
3
votes
2
replies
826
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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
7 weeks ago by Johannes W. Dietrich • 0
0
votes
0
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825
views
News: Training course - Machine Learning in Berlin
Machine-Learning Python
updated 11 months ago by 44k • written 5.1 years ago by ★ 2.5k
2
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0
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825
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News: Landscape Genomics course ONLINE
snp R next-gen
updated 11 months ago by 44k • written 4.1 years ago by ★ 2.5k
0
votes
0
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823
views
News: Bioinformatic Analysis of Next Generation Sequencing Data @NIH
RNA-Seq epigenomics ChIP-Seq
updated 11 months ago by 44k • written 4.8 years ago by ▴ 140
0
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0
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822
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News: bioinfo-core workshop at virtual ISMB 2020
conferences ismb
updated 11 months ago by 44k • written 4.1 years ago by 5.3k
0
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0
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821
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News: Training in Linux for Biomedical Researchers@NIH, USA,May 13-15,2020
Linux Training Biomedical Researchers Programming
updated 11 months ago by 44k • written 4.3 years ago by ▴ 140
0
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0
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821
views
News: EMBL Conference: In situ Structural Biology - From Cryo-EM to Integrative Modelling
Biophysical-analysis Modelling Structural-Biology
updated 11 months ago by 44k • written 4.6 years ago by ▴ 10
0
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0
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819
views
News: Data Visualization Course in Berlin
R
updated 11 months ago by 44k • written 4.9 years ago by ★ 2.5k
0
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0
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818
views
News: UniProt: Change of line length in UniProtKB text format
uniprot
updated 11 months ago by 44k • written 4.7 years ago by ★ 2.4k
0
votes
0
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817
views
News: Phylogenomics course in Berlin
SNP next-gen
updated 12 months ago by 44k • written 5.2 years ago by ★ 2.5k
0
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0
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816
views
News: TScourse: Introduction to GWAS (Genome-Wide Association Studies) (July 6th-10th, 2020, Crete (Greece))
PLINK PRSice GWAS R Genome
updated 11 months ago by 44k • written 4.1 years ago by ▴ 70
3
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0
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816
views
News: Phylogenomics course in Berlin
snp R next-gen
updated 11 months ago by 44k • written 4.5 years ago by ★ 2.5k
0
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0
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811
views
News: EMBL Conference: From Functional Genomics to Systems Biology
Proteomics Genomic Systems-biology Chromatin
updated 11 months ago by 44k • written 4.6 years ago by ▴ 10
0
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0
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811
views
News: Cellosaurus release 35 is available
knowledgebase cell-line
updated 11 months ago by 44k • written 3.9 years ago by ▴ 120
2
votes
0
replies
809
views
News: RNAseq data analysis with R and Bioconductor
R RNA-Seq RNA Bioconductor
updated 11 months ago by 44k • written 4.3 years ago by ★ 2.5k
0
votes
0
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808
views
News: Training - Introduction to Bioinformatics for beginners
assembly SNP RNA-Seq sequencing
updated 11 months ago by 44k • written 3.8 years ago by ★ 2.5k
0
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0
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807
views
News: Training in Advanced Transcriptomics (RNASeq) Analysis @ NIH, USA
sequence RNA-Seq training
updated 11 months ago by 44k • written 4.5 years ago by ▴ 140
0
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0
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806
views
News: UniProt: Change of annotation topic 'Interaction'
uniprot xml
updated 11 months ago by 44k • written 4.7 years ago by ★ 2.4k
0
votes
0
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806
views
News: Statistical Computing for Environmental Science with R and Rstudio
Rstudio online-course R-project statistics
updated 11 months ago by 44k • written 3.9 years ago by ▴ 70
0
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0
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804
views
News: 5-day course on Metabolomics in Berlin
Metabolomics R
updated 11 months ago by 44k • written 4.6 years ago by ★ 2.5k
1
vote
0
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804
views
News: Announcing the Genetic Engineering Attribution Challenge!
machine-learning data-science competition
updated 11 months ago by 44k • written 3.8 years ago by ▴ 10
2
votes
0
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803
views
News: Course: RNA-seq Analyses in non-model organisms (Berlin 11-15 November 2019)
gene RNA-Seq next-gen
updated 11 months ago by 44k • written 5.0 years ago by ★ 2.5k
0
votes
0
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800
views
News: Training in Statistical Analysis using R @NIH, July 8 - 10, 2020
R Biomedical next-gen Statistical-analysis
updated 11 months ago by 44k • written 4.0 years ago by ▴ 140
1
vote
0
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798
views
News: OmicsLogic Genomics Training Program starts July 23
genome dna genomics
updated 11 months ago by 44k • written 4.9 years ago by ▴ 340
3
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0
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798
views
News: ::FINAL CALL:: NGS Data Analysis for Beginners - 11-13 December 2019 in Munich, Germany (2 seats left)
NGS Workshop
updated 11 months ago by 44k • written 4.5 years ago by 11k
0
votes
0
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794
views
News: Training in Creating Plots, Graphs and Maps using R @ NIH
Graphs R Maps Plots
updated 11 months ago by 44k • written 4.5 years ago by ▴ 140
0
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0
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794
views
News: Single-molecule long-read sequencing reveals the chromatin basis of gene expression
sequencing
updated 11 months ago by 44k • written 4.9 years ago by • 0
0
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0
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794
views
News: Do you want to improve your programming skills?
Programming Unix Bash Python
updated 11 months ago by 44k • written 4.9 years ago by ★ 2.5k
0
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0
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793
views
News: Bioconductor (Bioc) 3.9
bioconductor
updated 11 months ago by 44k • written 5.1 years ago by 88k
0
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0
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790
views
News: EMBL Course: Exploratory Analysis of Biological Data: Data Carpentry
Data-Analysis Exploratory-Analysis Biological-Data
updated 11 months ago by 44k • written 4.6 years ago by ▴ 10
0
votes
0
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790
views
News: Training in Advanced Transcriptomics (RNASeq) Analysis @ NIH, USA
training RNA-seq
updated 12 months ago by 44k • written 5.5 years ago by ▴ 140
1
vote
0
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780
views
News: Gen3 DCF Services Webinar - Authentication, Authorization and Indexing
Gen3 Webinar
updated 12 months ago by 44k • written 5.2 years ago by ▴ 10
0
votes
0
replies
778
views
News: Course - Metabolomics: from study design to data analysis
Metabolomics R Bioconductor
updated 11 months ago by 44k • written 4.6 years ago by ★ 2.5k
0
votes
0
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776
views
News: Training in Programming for Biomedical Researchers @NIH, USA,March 2-5,2020
Researchers Biomedical Programming
updated 11 months ago by 44k • written 4.3 years ago by ▴ 140
2
votes
0
replies
775
views
News: Interested in learning more about Bayesian Statistics?
Bayesian-Statistics R Stan
updated 11 months ago by 44k • written 4.5 years ago by ★ 2.5k
0
votes
0
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775
views
News: Introduction to Bayesian Inference in Practice
statistics MCMC R Bayesian Python
updated 11 months ago by 44k • written 3.9 years ago by ▴ 70
3
votes
2
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775
views
News: NCBI BLAST+ 2.14.1 Now Available
NCBI BLAST
9 months ago by PeterC_NCBI ▴ 410
0
votes
0
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774
views
News: EMBL Course: Circulating Tumour DNA in Clinical Applications
Liquid-biopsy Clinical-application Tumour-cells
updated 11 months ago by 44k • written 4.6 years ago by ▴ 10
0
votes
0
replies
774
views
News: EMBO | EMBL Symposium: The Four-Dimensional Genome
microscopy genome DNA genomics
updated 11 months ago by 44k • written 4.8 years ago by ▴ 10
0
votes
0
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773
views
News: Webinar: Single Cell Multi-omics Data Analysis in Partek Flow - Visualization of CRISPR Data
CRISPR single-cell
updated 11 months ago by 44k • written 4.5 years ago by ▴ 30
1
vote
2
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770
views
News: Ensembl reduced functionality, early March
ensembl
updated 11 months ago by 44k • written 4.4 years ago by 23k
0
votes
0
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770
views
News: Training in Creating Plots, Graphs and Maps using R @ NIH
Biomedical next-gen Data-analysis
updated 11 months ago by 44k • written 4.8 years ago by ▴ 140
0
votes
0
replies
767
views
News: Training in Rosetta for Molecular Modeling and Design @NIH
Molecular-Design Modeling RNA-Seq Biomedical
updated 11 months ago by 44k • written 4.7 years ago by ▴ 140
0
votes
0
replies
767
views
News: Interested in learning more about CRISPR Genome Editing?
Genome-Editing CRISPR
updated 11 months ago by 44k • written 4.7 years ago by ★ 2.5k
0
votes
0
replies
764
views
News: UniProtKB: Standardization of 'Catalytic activity' annotations
uniprot
updated 12 months ago by 44k • written 5.7 years ago by ★ 2.4k
0
votes
0
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764
views
News: EMBO | EMBL Symposium: The Organism and its Environment
genotype organisms biological chemical phenotype
updated 11 months ago by 44k • written 4.8 years ago by ▴ 10
0
votes
0
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763
views
News: CFP Special Collection: Parallel Computing in Evolutionary Bioinformatics, SAGE Journal, JCR 2.203 (Q2)
CFP
updated 11 months ago by 44k • written 4.8 years ago by • 0
2
votes
0
replies
762
views
News: Eukaryotic Metabarcoding course in Berlin. Last places left.
JAMP R metabarcoding Obitools
updated 11 months ago by 44k • written 4.4 years ago by ★ 2.5k
0
votes
0
replies
761
views
News: Programming in R
R Programming
updated 12 months ago by 44k • written 5.2 years ago by ★ 2.5k
645 results • Page 7 of 13
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C: Classifying normal vs cancer tissues from mutational data
Classifying normal vs cancer tissues from mutational data
Pymol Scripting Help
A: Not sure if pipe from bowtie2 to samtools is working?
Comment: FastQC interpretation - 16S sequencing
Comment: FastQC interpretation - 16S sequencing
Answer: vg autoindex seems stuck after a week of running
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Recent Replies
Comment: Trimmomatic running but files containing purged reads are empty by GenoMax 142k
> Why is trimmomatic not removing any reads? It is not mandatory that your data have extraneous/adapter sequence. If no extraneous sequenc…
Comment: FastQC interpretation - 16S sequencing by GenoMax 142k
Since a specific region is being amplified it is expected that many of the library fragments will have identical sequences. Thus the low nu…
Comment: FastQC interpretation - 16S sequencing by Christopher • 0
@genomax Thank you so much for replying. I was quite unsure about the qualities. One more question. There is no problem within nucleotide d…
Comment: FastQC interpretation - 16S sequencing by GenoMax 142k
> My specific question is about the feasibility of per base sequence content analysis and whether I should be concerned about a particular …
Comment: How to get the ratio of allele counts from GATK derived VCF file? by anikcropscience ▴ 230
But I used the same bam files in both freebayes and GATK. Even the overlapping SNPs from both software are giving different estimates in te…
Comment: How to get the ratio of allele counts from GATK derived VCF file? by Pierre Lindenbaum 162k
may be downsampling(?), QC failing reads ?
Comment: How to get the ratio of allele counts from GATK derived VCF file? by anikcropscience ▴ 230
Thank you. However, I extracted the AD for each SNP that gives two numbers separated by a comma. I guess the first one is for reference and…
Answer: How to get the ratio of allele counts from GATK derived VCF file? by Pierre Lindenbaum 162k
> However, I am doing SNP calling using GATK, but there is no such information field for reference and alternate allele counts. it's in …
Comment: samtools write-index by GenoMax 142k
> The index file is older than the data file: alignment.sorted.bam.bai I don't think that warning is going to cause any issues. Not sure w…
Comment: samtools write-index by Pierre Lindenbaum 162k
can you please retry, but add rm -vf alignment.sorted.bam.bai before invoking minimap2. And `-o alignment.sorted.bam` should be enoug…
Answer: from CRAM to fastq by Pierre Lindenbaum 162k
if the CRAM/BAM is paire-end, it **must** be sorted on query name using samtools collate https://x.com/lh3lh3/status/1132756684789768202 …
Comment: from CRAM to fastq by machaalani29 • 0
one of the issues is that I am not very sure how the sequencing was done, but I think it was single end. any suggestions hoot do that?
Comment: from CRAM to fastq by machaalani29 • 0
the option -c is to compress the file
Comment: from CRAM to fastq by GenoMax 142k
Possibly. You appear to have written the data to a single file (in case it was paired-end to begin with). Check to make sure secondary alig…
Comment: converting transcript IDs (Ensembl) to gene symbols in R by GenoMax 142k
https://www.biostars.org/u/18990/ : Please do not delete threads that have received a comment/answer.
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