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23
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7
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4.4k
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News: Research accounts on GitHub
github git
updated 8 months ago by 41k • written 9.6 years ago by 158k
3
votes
0
replies
4.3k
views
News: Free Online Harvardx Course, Data Analysis For Genomics, Starts April 7
methylation bioconductor ChIP-seq RNA-seq R
updated 8 months ago by 41k • written 9.7 years ago by ★ 2.2k
24
votes
7
replies
4.3k
views
News: #Bioinformatics Crowdcoding
crowd-coding
updated 9 months ago by 41k • written 10.4 years ago by 158k
2
votes
0
replies
4.3k
views
News: Workshop: Analysis of single cell RNA-seq data
R next-gen RNA-Seq alignment
updated 6 months ago by 41k • written 6.4 years ago by ★ 2.4k
1
vote
0
replies
4.2k
views
News: Hands-On Training in RNA-seq Bioinformatics: A Practical Introduction - Mapping, Visualization, Basic Analyses
next-gen RNA-Seq workshop
updated 8 months ago by 41k • written 9.5 years ago by 10k
6
votes
4
replies
4.1k
views
News: awesome-single-cell: a list of open-source single-cell analysis software and workshop materials
single-cell RNA-Seq
updated 7 months ago by 41k • written 7.4 years ago by 26k
6
votes
9
replies
4.1k
views
News: 1000 Genomes : The Initial Phase 3 variant list and phased genotypes.
1000genomes
updated 8 months ago by 41k • written 9.4 years ago by 158k
11
votes
1
reply
4.1k
views
News: GATB will provide developer support via Biostar
minia dsk gatb
updated 22 months ago by 41k • written 9.5 years ago by ★ 1.5k
7
votes
8
replies
4.0k
views
News: Next-Gen Sequencing Tutorials On Cubelp (Cranfield Bioinformatics Electronic Learning Platform)
genome chip-seq snp assembly
updated 14 months ago by 41k • written 10.3 years ago by ▴ 610
1
vote
0
replies
3.9k
views
News: Workshop: Bioinformatics for Beginners, University of Maryland, College Park, USA
next-gen RNA-Seq workshop assembly
updated 9 months ago by 41k • written 8.6 years ago by ▴ 20
27
votes
9
replies
3.9k
views
News: OSX 10.11 released 30th Sep will be "rootless"
mac osx
updated 14 months ago by 41k • written 8.2 years ago by 13k
8
votes
6
replies
3.9k
views
News: Last Call: Upcoming Workshop - Rna-Seq Bioinformatics: A Practical Introduction
RNA-seq
updated 9 months ago by 41k • written 10.9 years ago by 10k
54
votes
24
replies
3.8k
views
12 follow
News: Big news from Microsoft. BASH on windows.
windows
updated 7 months ago by 41k • written 7.7 years ago by ★ 3.2k
4
votes
0
replies
3.8k
views
News: RepurposeDB - A New Reference Database of Drug Repositioning
precision-medicine drug-repositioning
updated 6 months ago by 41k • written 6.7 years ago by 18k
3
votes
3
replies
3.8k
views
News: A Tale Of Next Generation Sequencing Platforms: Ion Torrent, Pacific Biosciences And Illumina Miseq
sequencing
updated 9 months ago by 41k • written 11.3 years ago by 99k
12
votes
17
replies
3.8k
views
6 follow
News: A programming language for living cells [Cello]
dna sequence research language
updated 7 months ago by 41k • written 7.6 years ago by 11k
8
votes
10
replies
3.8k
views
News: New versions of Minia and DSK (2.0.x)
minia dsk assembly gatb
updated 19 months ago by 41k • written 8.8 years ago by ★ 1.5k
18
votes
11
replies
3.8k
views
News: Full Genome Sequencing Service 30x whole human genome sequencing for $3,490 (project cancelled)
genome next-gen-sequencing
updated 23 months ago by 41k • written 9.2 years ago by ▴ 100
7
votes
3
replies
3.7k
views
News: Visualizing genomic data: techniques and challenges. Our interview with Dr. Malachi Griffith, Dr. Obi Griffith and Mr. Zachary Skidmore (The Griffith…
R RNA-Seq genome NGSdata
updated 6 months ago by 41k • written 6.4 years ago by ★ 2.4k
6
votes
7
replies
3.7k
views
News: New in DiffBind: dba.plotProfile() - Peak profiles and profile heatmaps
DiffBind ChIP-seq deepTools visualization ATAC-seq
14 months ago by Rory Stark ★ 2.0k
51
votes
17
replies
3.7k
views
News: Biostars 3.0 is now under testing. It has groups, charms and other interesting features.
meta biostars
updated 9 months ago by 41k • written 8.7 years ago by 99k
3
votes
2
replies
3.7k
views
News: Course/Workshop: Informatics For Rna-Sequence Analysis (June, 2013)
RNA-seq
updated 9 months ago by 41k • written 10.9 years ago by 20k
12
votes
7
replies
3.7k
views
News: Welcome Ensembl REST with more endpoints!
ensembl rest-api
updated 8 months ago by 41k • written 9.1 years ago by ★ 5.2k
17
votes
9
replies
3.6k
views
News: My Ncbi Curriculum Vitae Web Application: Sciencv
ncbi
updated 9 months ago by 41k • written 10.2 years ago by 158k
33
votes
5
replies
3.6k
views
News: FINAL CALL: Epigenetics Workshop - DNA Methylation Data Analysis (some last seats available)
Epigenetics Workshop Bisulfite-Sequencing
updated 7 months ago by 41k • written 7.5 years ago by ▴ 460
0
votes
0
replies
3.6k
views
News: Journal Of Bioinformatics Research Studies- Call For Papers
publication biology
updated 8 months ago by 41k • written 9.7 years ago by • 0
9
votes
4
replies
3.6k
views
News: Conference Announcement - Camda 2013
conference classification
updated 9 months ago by 41k • written 10.9 years ago by ▴ 240
11
votes
2
replies
3.6k
views
News: Coursera: Computational Molecular Evolution
course
updated 9 months ago by 41k • written 10.5 years ago by 158k
5
votes
2
replies
3.6k
views
News: Tuesday 10/29 Live Tour Of New Features In Integrated Genome Browser 8
genome-browser RNA-seq ChIP-seq
updated 9 months ago by 41k • written 10.1 years ago by ★ 2.4k
14
votes
3
replies
3.6k
views
News: Updated: Conference/Symposium/Seminar/Workshop alert 2018-2019
seminar symposium conference
updated 6 months ago by 41k • written 5.5 years ago by 5.8k
6
votes
1
reply
3.5k
views
News: Symposium And Rna-Seq Data Analysis Workshop Charlotte May 13-14
RNA RNA-seq training
updated 8 months ago by 41k • written 9.7 years ago by ★ 2.4k
9
votes
5
replies
3.5k
views
News: SAMTOOLS 1.4 released
samtools
updated 6 months ago by 41k • written 6.7 years ago by 158k
5
votes
1
reply
3.5k
views
News: Broad Gatk Haplotypecaller Speed Improved 2-4 X By Cooperation With Intel, And Incremental Multi-Sample Calling Made Possible!
gatk variant-calling
updated 8 months ago by 41k • written 9.7 years ago by ★ 5.2k
27
votes
7
replies
3.4k
views
News: The Biostar Swarm: A Visualization
biostars
updated 9 months ago by 41k • written 10.8 years ago by 99k
0
votes
1
reply
3.4k
views
News: Workshop: Introductory Population Genomics: From Data to Inference
next-gen SNP R
updated 7 months ago by 41k • written 7.0 years ago by ★ 2.4k
2
votes
0
replies
3.4k
views
News: Bioinformatics Open Days 2Nd Edition - 14 And 15 Of March, 2013 At The University Of Minho, Campus Gualtar, Braga, Portugal.
conference
updated 9 months ago by 41k • written 10.9 years ago by ▴ 20
2
votes
0
replies
3.3k
views
News: Synthetic DNA/RNA Spike-in standards for NGS
RNA-Seq assay spike-in
updated 7 months ago by 41k • written 7.3 years ago by 136k
1
vote
0
replies
3.3k
views
News: Command Line Bioinformatics and High-throughput Sequencing Analysis Course
training course
updated 23 months ago by 41k • written 9.3 years ago by 7.4k
0
votes
2
replies
3.3k
views
News: Course: Practical GWAS using Linux and R. 23-27 October 2017, Berlin (Germany)
GWAS Linux R
updated 6 months ago by 41k • written 6.3 years ago by ★ 2.4k
10
votes
0
replies
3.3k
views
News: 1000 Genomes data on GRCh38
1000Genomes GRCh38 alts alignment
updated 15 months ago by 41k • written 8.1 years ago by ▴ 100
5
votes
2
replies
3.3k
views
News: Summary of AGBT 2015
AGBT2015 AGBT
updated 8 months ago by 41k • written 8.8 years ago by ▴ 640
8
votes
1
reply
3.3k
views
News: LAST DAY TO REGISTER - NGS Workshop 2015: A Practical Introduction to NGS Data Analysis (Oxford, UK)
RNA-Seq workshop
updated 8 months ago by 41k • written 9.1 years ago by 10k
12
votes
8
replies
3.3k
views
News: 'Potential Rna-Dna Binding Site In Alu Repeat', Or 'Why Should I Allow Multiple Mapping Positions When Analyzing Chipseq Data?'
chipseq rna
updated 9 months ago by 41k • written 10.4 years ago by 10k
11
votes
0
replies
3.2k
views
News: BWA 0.7.11 is out, supports ALT contigs
BWA
updated 8 months ago by 41k • written 8.9 years ago by 104k
14
votes
4
replies
3.2k
views
News: FULL: NGS Data Analysis Workshop for Beginners in Munich (29 June - 1 Juli 2016)
RNA-Seq next-gen NGS
updated 16 months ago by 41k • written 7.8 years ago by 10k
14
votes
5
replies
3.2k
views
News: Science Article On Social Influence Bias On Voting Patterns ("Herding") With Impact On Biostar.
meta biostars
updated 9 months ago by 41k • written 10.3 years ago by 53k
12
votes
0
replies
3.2k
views
News: Looking For Feedback On The Json Output For Ncbi E-Utilities
ncbi eutils
updated 9 months ago by 41k • written 11.0 years ago by ▴ 360
2
votes
0
replies
3.2k
views
News: Promoter Design Challenge: Design A Plant Promoter And We Will Construct It.
plant-promoter transcription-factor
updated 9 months ago by 41k • written 10.8 years ago by ▴ 20
4
votes
3
replies
3.2k
views
News: CAFE v4.0 available
phylogenetics CAFE
updated 6 months ago by 41k • written 6.7 years ago by ▴ 150
2
votes
0
replies
3.2k
views
News: "Practical GWAS Using Linux and R" Workshop
GWAS Linux R next-gen
updated 6 months ago by 41k • written 6.4 years ago by ★ 2.4k
1,000 results • Page 2 of 20
Recent Votes
Comment: bwa mem hangs after a few thousand reads
bwa mem hangs after a few thousand reads
Comment: How can I adjust Y-axis scale when making relative abundance box plot ?
How To Separate Illumina Based Strand Specific Rna-Seq Alignments By Strand
Answer: Generate Read counts from bam file
Comment: Generate Read counts from bam file
C: Heatmap : why scaling ?
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Recent Replies
Comment: bwa mem hangs after a few thousand reads by tshtatland ▴ 170
Cross-posted here: [sequence alignment - bwa mem hangs after a few thousand reads - Bioinformatics Stack Exchange](https://bioinformatics.s…
Comment: Best practices for differential expression analysis with low-yield Nanopore/ONT by tw_140 • 0
Thank you, I really appreciate your insight! I will look into the dropouts I have.
Answer: Generate Read counts from bam file by NextGenSeek • 0
Are you analysing RNA or DNA heteroplasmy levels?
Comment: What type of cancer did they study in this paper? by GenoMax 136k
Perhaps the exact cancer type is not what is important. Looks like they are [**all solid tumors**][1] with a baseline sample and one after …
Comment: p-value combination methods by i.sudbery 18k
edgeR *is* an NB-GLM. The input to NB-GLMs, including edgeR and DESeq is read counts from each sample.
Answer: What type of cancer did they study in this paper? by jared.andrews07 ★ 16k
Cutaneous or ocular melanoma. It's from [this paper](https://aacrjournals.org/cancerimmunolres/article/10/2/162/678013/NKG7-Is-a-T-cell-Int…
Comment: p-value combination methods by sehriban.buyukkilic • 0
its output of edgeR. I'm asking for input of NB-GLM? what should be input of it?
Comment: How do I download a list of genes involved in cellular metabolism (in humans) ba by el24 ▴ 40
Hi @pratik, Thanks for the helpful solution above. I'm working on a similar task in Mouse species and noticed the CTD database is human-spe…
Comment: Match variants for allele frequency, LD score, and other features by Jautis ▴ 520
Trying to bump this
Comment: p-value combination methods by i.sudbery 18k
The parameters you have here are the *output* of an NB-GLM, not the input to an NB-GLM (most likely edgeR?)
Comment: How can I adjust Y-axis scale when making relative abundance box plot ? by ATpoint 78k
Please provide data as dput(), not via any random dropbox, that could be anything (also malware, theoretically). If log transformation crea…
Comment: Extracting chimeric reads from mapping by doggie • 0
Hi Pierre, so does samjdk support single-end reads for extracting chimeric reads? I've aligned my virus to the human reference, sorted the …
Comment: How can I adjust Y-axis scale when making relative abundance box plot ? by dthorbur ▴ 870
You can try `scale_y_sqrt()` instead if you don't like the look of the log10 transformation. As an aside, it doesn't look like your fill va…
Comment: Making multiple box plots with relative abundance in R by ohtang7 ▴ 30
Thank you!! I really appreciate your help.
Comment: Making multiple box plots with relative abundance in R by rpolicastro 12k
In `scale_fill_manual` you have e.g. `"stray"` but in your data it's `"Stray"`. Just make sure the cases match.
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