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News: GeneSCF (Gene Enrichment Tool): Advice to users
kegg GeneSCF GO annotation
updated 14 months ago by 43k • written 7.3 years ago by 7.5k
5
votes
1
reply
1.1k
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News: New biostar-tools metaport for FreeBSD
freebsd software
2.6 years ago by bacon4000 ▴ 80
5
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0
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2.2k
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News: [UPDATED] Hands-On NGS Data Analysis Workshops 2019
NGS Bisulfite-Seq RNA-Seq DNA-Seq
updated 11 months ago by 43k • written 5.4 years ago by 11k
5
votes
2
replies
3.7k
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News: Tuesday 10/29 Live Tour Of New Features In Integrated Genome Browser 8
genome-browser RNA-seq ChIP-seq
updated 14 months ago by 43k • written 10.5 years ago by ★ 2.4k
5
votes
1
reply
2.6k
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News: Advanced Course: R programming and development 15-16. January 2015 (Thursday-Friday), EMBL Heidelberg
programming course R
updated 13 months ago by 43k • written 9.5 years ago by ★ 1.7k
5
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1
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1.6k
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News: 2-day WORKSHOP on SNAKEMAKE
next-gen
updated 11 months ago by 43k • written 5.9 years ago by ★ 2.5k
5
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0
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1.3k
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News: Bioconductor 2015 conference live tweeting and materials
bioconductor R
updated 13 months ago by 43k • written 8.8 years ago by 26k
5
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1
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2.8k
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News: Canadian Bioinformatics Workshops Series Announced For 2014
training
updated 13 months ago by 43k • written 10.3 years ago by 20k
5
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1
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1.8k
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News: Google Joins The Global Alliance For Genomics And Health
genomics
updated 13 months ago by 43k • written 10.2 years ago by 161k
4
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4
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1.7k
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News: VCFclin working group
vcfclin
updated 13 months ago by 43k • written 10.0 years ago by ▴ 30
4
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0
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1.4k
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News: ONLINE course - Metagenomics, metatranscriptomics, and multi'omics for microbial community studies
next-gen-sequencing
updated 10 months ago by 43k • written 4.1 years ago by ★ 2.5k
4
votes
3
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1.9k
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News: Proteomics and Genomics Submit your Research Journals
Research Genomics Journals Proteomics
updated 16 months ago by 43k • written 8.8 years ago by • 0
4
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0
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2.4k
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News: Upcoming Workshop: Ensembl Perl APIs
ensembl APIs Perl workshops
updated 13 months ago by 43k • written 9.5 years ago by ★ 5.2k
4
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1
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646
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News: Online Course - A Practical Introduction to NGS Data Analysis (September 26-28, 2022)
workshop ngs data-analysis
updated 21 months ago by 43k • written 21 months ago by 11k
4
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0
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1.0k
views
News: SIG Workshop to discuss developments in computational pathology and its interfacing opportunities with bioinformatics during ECCB 2018
microscopy wsi digital-pathology
updated 11 months ago by 43k • written 5.7 years ago by ▴ 40
4
votes
1
reply
1.2k
views
News: Bioinformatics Workflows with Nextflow
Netflow reproducibility Workflows
updated 10 months ago by 43k • written 4.4 years ago by ★ 2.5k
4
votes
2
replies
592
views
News: Standalone NCBI ClusteredNR database now available for download
ClusteredNR NCBI standalone BLAST
7 months ago by PeterC_NCBI ▴ 410
4
votes
0
replies
907
views
News: The BioCompute Object App-a-thon starts on May 14!
standards computation pipeline
updated 13 months ago by 43k • written 5.0 years ago by ▴ 150
4
votes
2
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3.1k
views
News: NCBI NOW (Next generation sequencing Online Workshop) October 13 - 23 , 2015
NCBI DNA-Seq NGS RNA-Seq
updated 13 months ago by 43k • written 8.6 years ago by ★ 2.2k
4
votes
0
replies
1.6k
views
News: $650M gift to Broad seeks to propel (Genomics based ) psychiatric research
sequencing
updated 13 months ago by 43k • written 9.8 years ago by ★ 5.3k
4
votes
3
replies
3.3k
views
News: CAFE v4.0 available
phylogenetics CAFE
updated 11 months ago by 43k • written 7.1 years ago by ▴ 150
4
votes
2
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2.9k
views
News: New ebook: From cell line to Command line to learn computational biology
unix snakemake computational-biology RNA-seq
5 months ago by Ming Tommy Tang ★ 3.9k
4
votes
0
replies
1.8k
views
News: Call for Abstracts for the 18th Annual Bioinformatics Open Source Conference (BOSC 2017)
BOSC OBF
updated 12 months ago by 43k • written 7.1 years ago by ★ 2.2k
4
votes
0
replies
1.5k
views
News: All of Us (NIH) precision medicine research program is now open for enrollment
precision-medicine
updated 11 months ago by 43k • written 6.0 years ago by 141k
4
votes
1
reply
1.8k
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News: scRNA-seq data analysis Workshop in Berlin
RNA-Seq next-gen
updated 11 months ago by 43k • written 5.4 years ago by ★ 2.5k
4
votes
0
replies
2.9k
views
News: Wed 9/25 On-Line, Live Tutorial For Integrated Genome Browser
visualization ChIP-seq RNA-seq igv genome-browser
updated 14 months ago by 43k • written 10.6 years ago by ★ 2.4k
4
votes
3
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3.2k
views
News: -max_target_seqs 1 in NCBI standalone BLAST does not do what you think it does
blast
updated 11 months ago by 43k • written 5.5 years ago by 11k
4
votes
1
reply
1.4k
views
News: The 1000 Genomes Project Data Portal Beta Release
1000genomes next-gen SNP
updated 12 months ago by 43k • written 8.0 years ago by ★ 1.8k
4
votes
1
reply
1.8k
views
News: Bioinformatics Contest 2018
contest
updated 11 months ago by 43k • written 6.3 years ago by ▴ 40
4
votes
0
replies
717
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News: Call for Bioinformatics Papers - Genes Special Issue
gene
updated 10 months ago by 43k • written 4.3 years ago by ▴ 730
4
votes
0
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1.2k
views
News: Workshop for genomic data visualization and interpretation
R RNA-Seq ggplot2 genomics
updated 11 months ago by 43k • written 5.4 years ago by 19k
4
votes
0
replies
2.4k
views
News: Google Genomics and Broad Institute Team Up to Tackle Genomic Data
google broad gatk
updated 16 months ago by 43k • written 8.8 years ago by ★ 5.3k
4
votes
4
replies
2.9k
views
News: Join The Dnanexus Developer Program
api cloud
updated 14 months ago by 43k • written 10.9 years ago by ▴ 30
4
votes
2
replies
1.3k
views
News: Hands-On Workshop: How to use bisulfite-treated sequencing to study DNA methylation (BS-Seq, Bisulfite-Seq, WGBS)
Workshop methylation bisulfite
updated 10 months ago by 43k • written 4.6 years ago by ★ 1.0k
4
votes
3
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1.9k
views
News: Boston Genomics Hackathon (facilitated by NCBI)
NCBI RNA-Seq DNA-seq hackathon
updated 12 months ago by 43k • written 8.1 years ago by ▴ 330
4
votes
1
reply
2.2k
views
News: 2014 ISCB Wikipedia Article Competition announcement
ISCB competition Wikipedia
written 9.7 years ago by ★ 2.0k
4
votes
3
replies
1.0k
views
News: You may need to cleanup duplicate NCBI BLAST nt database volumes on your system
databases NCBI BLAST
8 months ago by PeterC_NCBI ▴ 410
4
votes
4
replies
1.9k
views
News: 12th International Conference on Advancements in Bioinformatics and Drug Discovery
genome Computational-Biology
updated 11 months ago by 43k • written 6.0 years ago by ▴ 20
4
votes
1
reply
2.3k
views
News: ENCODE Users' Meeting
encode ucsc conference functional-genomics ensembl
updated 20 months ago by 43k • written 8.9 years ago by 23k
4
votes
0
replies
2.4k
views
News: 2nd UK Bioinformatics Student Symposium on 7 Oct '15 at TGAC, Norwich
symposium
updated 18 months ago by 43k • written 8.7 years ago by ▴ 100
4
votes
1
reply
2.1k
views
News: Mark2Cure launches tool to help crowd-source curation of the biomedical literature
crowd-sourcing
updated 16 months ago by 43k • written 9.3 years ago by 20k
4
votes
3
replies
1.9k
views
News: How the strengths of Lisp-family languages facilitate building complex and flexible bioinformatics applications
ChIP-Seq RNA-Seq
updated 12 months ago by 43k • written 7.3 years ago by ▴ 350
4
votes
0
replies
3.0k
views
News: New simulation dataset for 'A benchmark for RNA-seq quantification pipelines'
RNA-Seq
updated 12 months ago by 43k • written 7.9 years ago by ★ 2.6k
4
votes
5
replies
2.8k
views
News: Kover will provide support via Biostars
kmer kover machine-learning
updated 12 months ago by 43k • written 7.9 years ago by ▴ 90
4
votes
0
replies
197
views
News: Transform Your Research with Our NGS Data Analysis Online Course!
DNAseq NGS Biologists OnlineCourse RNAseq
3 months ago by David Langenberger 11k
4
votes
3
replies
2.2k
views
News: India Recently Started Personal Genome Profiling, Commercially.
genome-profiling
updated 14 months ago by 43k • written 10.9 years ago by ▴ 1000
4
votes
0
replies
6.4k
views
News: The genome Aggregation Database (gnomAD)
gnomAD
updated 12 months ago by 43k • written 7.2 years ago by 161k
4
votes
0
replies
2.8k
views
News: Python for Scientists - FREE Ebook from O'Reilly
python Data-Analysis
updated 13 months ago by 43k • written 8.6 years ago by ★ 2.2k
4
votes
0
replies
2.2k
views
News: Rna-Seq Workshop In Oslo - Seats Available
RNA-seq
updated 13 months ago by 43k • written 10.2 years ago by ▴ 60
4
votes
0
replies
642
views
News: A Practical Introduction to Single-Cell RNA-Seq Data Analysis (November 8-10, 2023 in Berlin, Germany)
NGS RNA-Seq single-cell workshop
10 months ago by David Langenberger 11k
1,000 results • Page 5 of 20
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Comment: To get p-values for the TPM
A: Where To Download Pam50 Gene Set?
A: Where To Download Pam50 Gene Set?
Answer: Fail to install umap-learn in R
Answer: Fail to install umap-learn in R
Answer: Fail to install umap-learn in R
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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…
Comment: How to trim transcripts using information from NCBI contamination screen report by GenoMax 141k
`bbduk.sh` can use the transcripts as input. There is a `adapters.fa` included in the `resources` directory of the distribution. You can do…
Comment: PCA plot (Suggestions Needed) by swbarnes2 14k
Cross posted here (including the code used to make up the counts): https://support.bioconductor.org/p/9157911/#9157959
Comment: To get p-values for the TPM by swbarnes2 14k
RSEM returns a kind of p-value if you run it with the "prior-enhanced" option. Did you do that? Are you completely sure that's the value y…
Comment: How to trim transcripts using information from NCBI contamination screen report by Lada ▴ 30
i checked both of these programs (`bbduk` and `fastp`) and it seems they use reads as inputs (fastq formats)... how can I trim my transcrip…
Comment: AGeNT LocatIt by barslmn ★ 2.1k
He is already giving 32G, 320G for marking duplicates for exome is excessive. Is there a specific reason for using the tool?
Comment: How to convert plink files to Hapmap Format by bk11 ★ 2.3k
This looks good. Please try with using `--allow-no-sex flag` plink --bfile your_data_phenoUP --assoc --allow-no-sex --out your_data_ph…
Comment: How to convert plink files to Hapmap Format by Sofia • 0
SC899359_PC75420_A05 SC899359_PC75420_A05 0 0 0 2 SC899360_PC75415_D01 SC899360_PC75415_D01 0 0 0 2 SC899361_PC75425_H05 SC899361_PC75425_H…
Comment: How to convert plink files to Hapmap Format by bk11 ★ 2.3k
Please show me a few lines of phenotype updated .fam file. You can do `head your_data_phenoUP.fam` and paste result here. Please do not us…
Comment: GEMMA GWAS how to specify factor or numerical for covariates by Sofia • 0
Hi, I don't have a solution to your question but I followed this tutorial and was helpful to me in my analysis https://youtu.be/NusV6duyvXs…
Comment: Is it possible to get a list of representative genomes from a past RefSeq releas by GenoMax 141k
Catalog file lists the genomes included. There seem to be 71365 unique items in field 2. 2 Bacteria WP_000018326.1 4459…
Comment: How to convert plink files to Hapmap Format by Sofia • 0
yes sure ! ![enter image description here][1] [1]: /media/images/f0f94f6c-4387-4188-a1aa-19152a89
Answer: AGeNT LocatIt by Greg • 0
Give it more memory. ~10x more memory, or whatever you can give it, I had samples that weren't even close to being done after 3.5 da…
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