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News: Plos Computational Biology: Translational Bioinformatics
tutorial News
updated 9.9 years ago by 96k • written 9.9 years ago by 9.5k
8
votes
1
reply
3.1k
views
News: LAST DAY TO REGISTER - NGS Workshop 2015: A Practical Introduction to NGS Data Analysis (Oxford, UK)
workshop News RNA-Seq
updated 22 months ago by 37k • written 8.3 years ago by 9.8k
8
votes
0
replies
1.7k
views
News: New MOOC: Algorithms for DNA Sequencing
alignment Assembly genomics mooc
updated 3 months ago by 37k • written 7.5 years ago by ▴ 80
8
votes
8
replies
2.1k
views
News: Coronavirus Genome Analysis: a new volume in the Biostar Handbook
biostar handbook bioinformatics education News
written 2.9 years ago by 96k
8
votes
2
replies
2.0k
views
News: The bioinformatics chat is a new podcast about bioinformatics. In the first episode we discuss Scallop, a transcriptome assembler
RNA-Seq Assembly podcast News
updated 5.8 years ago by ▴ 320 • written 5.8 years ago by ▴ 120
8
votes
4
replies
1.5k
views
News: supporting vg users on biostars
vg graph vgteam genome News variation
updated 6 weeks ago by 4.4k • written 3.4 years ago by ★ 2.3k
8
votes
1
reply
975
views
News: Clustered `nr` database is now available for web blast @NCBI
nr blast
updated 11 months ago by ★ 22k • written 12 months ago by 125k
8
votes
0
replies
1.1k
views
News: Final Call - Hands-On RNA-Seq Data Analysis Workshop - only 2 seats left
RNA-Seq workshop data analysis News
3.6 years ago by David Langenberger 9.8k
8
votes
1
reply
2.5k
views
News: An Interesting Article On Bioinformatics Education With Some Press For Biostar
biostar News
written 9.5 years ago by 11k
8
votes
10
replies
3.4k
views
News: New versions of Minia and DSK (2.0.x)
minia dsk assembly gatb
updated 9 months ago by 37k • written 8.0 years ago by ★ 1.5k
8
votes
0
replies
1.7k
views
News: Please help! IGB grant and survey
igb ChIP-Seq RNA-Seq genome
updated 9 months ago by 37k • written 7.9 years ago by ★ 2.3k
8
votes
3
replies
1.3k
views
News: fastp 0.22 released, with new FASTQ deduplication feature.
fastp
updated 16 months ago by 125k • written 17 months ago by ★ 2.4k
8
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0
replies
2.0k
views
News: A Call To Create Listings Of The Best Review Papers
News
10.4 years ago by Istvan Albert 96k
8
votes
6
replies
16k
views
News: Bioinformatics PhD Programs in the US
education PhD News
3.9 years ago by Ahmed Youssef ▴ 70
8
votes
6
replies
1.1k
views
News: Illumina to Acquire Pacific Biosciences
illumina pacbio News
4.2 years ago by Istvan Albert 96k
7
votes
3
replies
1.4k
views
News: New NCBI Datasets home and documentation pages provide easier access
ncbi gene SARS-CoV-2 genome
updated 21 months ago by 96k • written 21 months ago by ▴ 50
7
votes
0
replies
2.7k
views
News: Correction for "A benchmark for RNA-seq quantification pipelines"
rna-seq News
6.6 years ago by rairizarry ▴ 70
7
votes
1
reply
2.9k
views
News: A Multi-Split Mapping Algorithm For Circular Rna, Splicing, Trans-Splicing, And Fusion Detection
ngs mapping News
9.0 years ago by David Langenberger 9.8k
7
votes
2
replies
2.0k
views
News: Upcoming Hands-On Workshop: microRNA Analysis Using Next-Generation Sequencing
microRNA NGS workshop News
updated 6.6 years ago by ▴ 460 • written 6.6 years ago by 9.8k
7
votes
5
replies
2.2k
views
News: Physalia-Course: Introduction to Linux and workflows for biologists (Berlin)
Assembly next-gen alignment Unix News
5.9 years ago by carlopecoraro2 ★ 2.2k
7
votes
0
replies
802
views
News: New layout for NCBI BLAST FTP database site starting February 4, 2020
blast+ ftp blast_index News
3.0 years ago by GenoMax 125k
7
votes
0
replies
1.7k
views
News: Us Ethics Panel Reports On Dna Sequencing And Privacy
next-gen News
10.3 years ago by Mary 11k
7
votes
0
replies
1.3k
views
News: First PacBio Sequel data available
sequel pacbio News
6.3 years ago by GenoMax 125k
7
votes
0
replies
3.0k
views
News: Ncbi E-Utilities Now Provides Output In Json Format (Einfo, Esearch, And Esummary Only, For Now)
ncbi format eutils entrez
updated 5 months ago by 37k • written 8.9 years ago by 152k
7
votes
1
reply
429
views
News: NGSymposium - Conference in Computational Biology, 23-24.09
ML statistics conference ngschool
8 months ago by kzkedzierska ▴ 290
7
votes
8
replies
3.6k
views
News: Next-Gen Sequencing Tutorials On Cubelp (Cranfield Bioinformatics Electronic Learning Platform)
genome chip-seq snp assembly
updated 3 months ago by 37k • written 9.4 years ago by ▴ 610
7
votes
4
replies
2.4k
views
News: Boston Ma Us Area Folks: Software Carpentry Workshop For Women In Science Coming Up
python training News
updated 9.3 years ago by • 0 • written 9.8 years ago by 11k
7
votes
11
replies
1.5k
views
News: Bringing the power of Big Data to biomedical researchers
NGS biomedical research News
updated 5.5 years ago by 52k • written 5.5 years ago by ▴ 100
7
votes
3
replies
4.1k
views
News: Pathway Commons 2 - Search And Visualize Public Biological Pathway Information. Single Point Of Access.
api cytoscape News
9.2 years ago by B. Arman Aksoy ★ 1.2k
7
votes
2
replies
2.1k
views
News: Annotation of Zebrafish pri-miRNAs promoters and CAGE-seq detected active Drosha processing events.
Drosha-processing moRNAs pri-miRNAs zebrafish
updated 5 months ago by 37k • written 7.1 years ago by ★ 2.3k
7
votes
0
replies
1.7k
views
News: CIViC Hackathon and Curation Jamboree at NGS in Molecular Pathology Meeting, NKI, Nov 30 - Dec 2
NKI News civic meeting hackathon
updated 6.3 years ago by 19k • written 6.4 years ago by ▴ 290
7
votes
8
replies
1.4k
views
News: A new Stack Exchange site for Research Computing
unix linux programming News
updated 5.2 years ago by 125k • written 5.2 years ago by ▴ 690
7
votes
3
replies
3.5k
views
News: Visualizing genomic data: techniques and challenges. Our interview with Dr. Malachi Griffith, Dr. Obi Griffith and Mr. Zachary Skidmore (The Griffith…
RNA-Seq R NGSdata genome News
4.1 years ago by carlopecoraro2 ★ 2.2k
7
votes
1
reply
2.5k
views
News: Integrated Genome Browser version 8.3 released - new native installer
ChIP-Seq RNA-Seq igv igb
updated 10 months ago by 37k • written 8.0 years ago by ★ 2.3k
6
votes
2
replies
2.0k
views
News: Galaxy-specific Biostar Instance
News biostar galaxy
updated 16 months ago by 37k • written 8.8 years ago by ▴ 380
6
votes
5
replies
4.7k
views
News: NCBI MagicBlast ( Short read mapper )
ncbi blast hts mapper shortread News
6.4 years ago by Pierre Lindenbaum 152k
6
votes
7
replies
2.5k
views
News: New in DiffBind: dba.plotProfile() - Peak profiles and profile heatmaps
DiffBind ChIP-seq deepTools visualization ATAC-seq
4 months ago by Rory Stark ★ 1.6k
6
votes
1
reply
1.7k
views
News: Are protein domains indivisible?
Domains Proteins Athropy News
updated 7.6 years ago by ▴ 200 • written 7.7 years ago by ★ 4.2k
6
votes
2
replies
1.6k
views
News: Belly Button Biodiversity Project Requests Your Analysis
News
10.2 years ago by Mary 11k
6
votes
2
replies
2.2k
views
News: Interested in de novo transcriptome assembly using Trinity? Check out our interview to Brian Haas
rna-seq alignment RNA-Seq News
5.9 years ago by carlopecoraro2 ★ 2.2k
6
votes
7
replies
1.4k
views
News: NCBI wants to remove quality scores from SRA
SRA quality scores genome Assembly trimming News
updated 2.6 years ago by 125k • written 2.6 years ago by ▴ 40
6
votes
2
replies
1.4k
views
News: Biostars On The Genome Technology Cover
biostar News
10.0 years ago by Istvan Albert 96k
6
votes
0
replies
1.4k
views
News: BOSC 2015 slides and videos
BOSC BOSC2015
updated 3 months ago by 37k • written 7.5 years ago by ★ 2.2k
6
votes
2
replies
1.9k
views
News: RNA-Seq Data Analysis Workshop in Leipzig, Germany (09 - 12 October 2017)
RNA-Seq workshop NGS News
updated 5.6 years ago by • 0 • written 5.6 years ago by 9.8k
6
votes
0
replies
328
views
News: NGSchool2022: Machine Learning in Computational Biology
summer machine learning school ngschool ML statistics
9 months ago by kzkedzierska ▴ 290
6
votes
0
replies
2.5k
views
News: Broad Releases Fastg Multiple Seq Assembly Format
reference format News
10.1 years ago by William ★ 5.1k
6
votes
9
replies
3.6k
views
News: 1000 Genomes : The Initial Phase 3 variant list and phased genotypes.
News 1000genomes
updated 15 months ago by 37k • written 8.6 years ago by 152k
6
votes
1
reply
2.3k
views
News: FastQC Version 0.11.1 released
genome next-gen sequencing News
updated 15 months ago by 37k • written 8.7 years ago by ★ 2.2k
6
votes
4
replies
764
views
News: Upcoming online training courses
Python R
17 months ago by carlopecoraro2 ★ 2.2k
6
votes
4
replies
1.3k
views
News: Genomic variation course at the EBI - Updated
variation 1000 Genomes Ensembl snps News
6.7 years ago by Emily 23k
1,000 results • Page 3 of 20
Recent Votes
Comment: a problem with getBM
C: Reorder heatmap rows in a dataset with missing values
A: Difference between GTF file with CHR and without CHR. ENSEMBL
Answer: Base recalibration in normal vs. tumor somatic variant calling in WXS data?
A: from .BAM to .BAI using samtools
Comment: bgzip error 4
Answer: Gene Set Enrichment Analysis, pathway, metabolism
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Recent Replies
Answer: how to do a reliable single cell sequencing analysis? by ATpoint 68k
The usual approach for starters would be to follow guided and well-accepted tutorials. That would (incomplete list) be: - The Biocon…
Answer: a problem with getBM by sanaz • 0
head(ensembl_ids) X baseMean log2FoldChange lfcSE stat pvalue padj 1 ENSG00000000938.13 1344.2587 2.107…
Answer: Recommendations needed for a tool for comparative gene set enrichment analyses v by fuellen ▴ 20
Hello and Thanks! OK, I should have written "The gene lists I have prepared" instead of "The DEG lists I have prepared". In any case, is …
Comment: a problem with getBM by Mike Smith ★ 1.9k
Can you update your post to show some examples of what's in your `ensembl_ids` object? Perhaps the contents of `head(ensembl_ids)`. It's …
Answer: trainGlimmerHMM Error while training a genome by congliu37 • 0
Hello, I got the same error using ~20,000 genes for training and it was solved by reducing training gene set. I assume GlimmerHMM was no…
Comment: How to Calulate Allele Frequency from a VCF File? by Jeremy Leipzig 21k
That's correct. You don't have biallelic alleles in mitochondria, so you can use either the Allele depth (AD) or depth of coverage (DP) for…
Comment: How to calculate tumor mutation burden (TMB)? by Fabio Marroni ★ 2.9k
I just published a [post][1] on my blog, in which I include a simple R function for computing TMB. Try to see if that helps. I followed the…
Comment: Gene Set Enrichment Analysis, pathway, metabolism by Rob ▴ 160
Thank you FrankStarling, ATpoint, jv, these were so helpful.
Comment: translate CDS to prot formatted with nt nubers by Pierre Lindenbaum 152k
> with nucleotide numbers and DNA/prot aligned line by line what does it mean ? Create a Minimal, Reproducible Example to enable others t…
Comment: How to translate CDS to an amino acid sequence by vvasta • 0
I tried several of the online DNA translation tools but have not found one that would output DNA/prot alignment with nucleotide number w…
Comment: How possible deadlocks are there while migrating from MYISAM to InnoDb? by Pierre Lindenbaum 152k
but you already knew it. https://www.biostars.org/p/9551097/#9551098
Comment: How possible deadlocks are there while migrating from MYISAM to InnoDb? by Pierre Lindenbaum 152k
your question is not related to bioinformatics. Ask stackoverflow.com.
Comment: Statistical test for checking cis regulation? by Fabio Marroni ★ 2.9k
Hi lumos. It is not very clear to me what kind of information are you using for the test and how are you measuring cis-regulation. Are you …
Comment: Error 134 while aligning using hisat2 by Fabio Marroni ★ 2.9k
Other instances of the same error were indeed related to disk [space][1]. Can you post the output of the command: `df -h /bams/`? Another p…
Comment: **Error: unable to open file or unable to determine types for file** by Pierre Lindenbaum 152k
``` Please ensure that your file is TAB delimited (e.g., cat -t FILE). - Also ensure that your file has integer chromosome coordinates in t…
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