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News: Survey: Rna-Seq Analysis For Differential Gene/Transcript Expression [Updated With Results]
transcript RNA-seq gene
updated 9 months ago by 41k • written 11.0 years ago by ▴ 250
25
votes
7
replies
2.6k
views
6 follow
News: Who qualifies to be a bioinformatician?
resume bioinformatician vc
updated 17 months ago by 41k • written 8.6 years ago by 158k
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
6
votes
7
replies
2.0k
views
News: NCBI wants to remove quality scores from SRA
quality-scores trimming Assembly genome SRA
updated 5 months ago by 41k • written 3.4 years ago by ▴ 40
10
votes
7
replies
2.2k
views
News: Free draft copy of book on bioinformatics tools
alignment Assembly RNA-seq next-gen
updated 10 months ago by 41k • written 8.5 years ago by ★ 1.1k
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
6
votes
7
replies
5.2k
views
News: Illumina Nextseq 500 And Hiseq X Ten: Newer Tech Lowering Cost Per Mbp
Illumina
updated 9 months ago by 41k • written 9.9 years ago by ▴ 640
8
votes
6
replies
17k
views
News: Bioinformatics PhD Programs in the US
education PhD
updated 6 months ago by 41k • written 6.0 years ago by ▴ 70
17
votes
6
replies
8.8k
views
News: Final registration deadline: September 15th - Bioinformatics Hands-On NGS Data Analysis Workshops 2014
methylation RNA-seq
updated 8 months ago by 41k • written 9.7 years ago by 10k
3
votes
6
replies
2.5k
views
News: Brief Getting Started with Broad Firecloud tutorial posted
RNA-Seq
updated 7 months ago by 41k • written 7.4 years ago by 26k
8
votes
6
replies
1.3k
views
News: Illumina to Acquire Pacific Biosciences
pacbio illumina
updated 6 months ago by 41k • written 5.1 years ago by 99k
32
votes
6
replies
13k
views
7 follow
News: Ncbi Releases Entrez Direct, The Entrez Utilities On The Unix Command Line
ncbi genbank pubmed command-line entrez
updated 9 months ago by 41k • written 9.8 years ago by 158k
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
14
votes
6
replies
6.9k
views
News: FINAL CALL: NGS Workshop - A Beginner's Guide to NGS Data Analysis (2 last seats)
NGS RNA-Seq workshop
updated 11 months ago by 41k • written 8.4 years ago by 10k
2
votes
6
replies
2.7k
views
News: Master in integrated systems biology / Luxembourg
systems-biology Masters-course
updated 6 months ago by 41k • written 6.4 years ago by ▴ 130
1
vote
6
replies
1.0k
views
News: Course - FLOW CYTOMETRY ANALYSIS WITH R/BIOCONDUCTOR
Bioconductor FlowCytometry R
updated 10 months ago by ▴ 80 • written 11 months ago by ★ 2.4k
9
votes
6
replies
2.0k
views
News: No more hidden solutions in bioinformatics
precision-medicine genome-sequencing
updated 10 months ago by 41k • written 8.5 years ago by ★ 1.2k
6
votes
5
replies
5.1k
views
News: NCBI MagicBlast ( Short read mapper )
blast ncbi short-read mapper hts
updated 7 months ago by 41k • written 7.2 years ago by 158k
9
votes
5
replies
8.5k
views
News: A New Rest Based Api For Kegg: Kyoto Encyclopedia Of Genes And Genomes
kegg api
updated 9 months ago by 41k • written 11.0 years ago by ▴ 50
3
votes
5
replies
2.1k
views
News: Published: GeneSCF: a real-time based functional enrichment tool with support for multiple organisms
kegg gene-enrichment cancer gene-ontology
updated 7 months ago by 41k • written 7.2 years ago by 7.5k
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
3
votes
5
replies
1.0k
views
News: Ensembl Release 104 and newer GTF files no longer have genes sorted by position
Ensembl GTF
updated 11 weeks ago by ▴ 50 • written 12 months ago by ▴ 30
4
votes
5
replies
2.7k
views
News: Kover will provide support via Biostars
kmer kover machine-learning
updated 7 months ago by 41k • written 7.5 years ago by ▴ 90
0
votes
5
replies
1.5k
views
News: LAST CALL - 'Introduction to NGS Data Analysis' course in Berlin, October 8-10 2018
NGS training RNA-Seq DNA-Seq
updated 6 months ago by 41k • written 5.5 years ago by 10k
3
votes
5
replies
2.0k
views
News: (18 August - "Enzyme Stability Prediction") A free webinar on on-going CAFA5 (Critical Assessment of Functional Annotation of proteins) challenge
gene-ontology CAFA protein
3 months ago by Alexander ▴ 200
7
votes
5
replies
2.4k
views
News: Physalia-Course: Introduction to Linux and workflows for biologists (Berlin)
next-gen Unix Assembly alignment
updated 6 months ago by 41k • written 6.7 years ago by ★ 2.4k
1
vote
5
replies
978
views
News: Cancer Genomics course - 2 seats left
Genomics Cancer-Genomics R
updated 10 months ago by 41k • written 10 months ago by ★ 2.4k
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
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
9
votes
5
replies
2.9k
views
News: The NIH Software Discovery Index | We invite your comments
NIH software-catalog
updated 22 months ago by 41k • written 9.2 years ago by 26k
0
votes
5
replies
1.9k
views
News: Ashg 2012 Biostar Meetup
ASHG
updated 9 months ago by 41k • written 11.1 years ago by 12k
0
votes
5
replies
2.5k
views
News: Workshop: Data manipulation and visualization with Python
next-gen genome SNP sequence
updated 7 months ago by 41k • written 7.0 years ago by ★ 2.4k
9
votes
5
replies
10k
views
8 follow
News: Online course: Learn Bioinformatics in 100 hours
biostars online-course
updated 9 months ago by 41k • written 6.3 years ago by 99k
2
votes
4
replies
1.3k
views
News: Online training - Snakemake: Reproducible and Scalable Bioinformatic Workflows
Snakemake Pipeline
24 months ago by carlopecoraro2 ★ 2.4k
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
1
vote
4
replies
1.4k
views
News: Spring School for RNA-seq Sequence Analysis
RNA-Seq genome sequence sequencing
updated 7 months ago by 41k • written 6.8 years ago by ▴ 10
7
votes
4
replies
2.6k
views
News: Boston Ma Us Area Folks: Software Carpentry Workshop For Women In Science Coming Up
python training
updated 9 months ago by 41k • written 10.6 years ago by 11k
3
votes
4
replies
2.2k
views
News: Training in Metagenomics Data Analysis @NIH, USA, Nov 14 - 17, 2017
metagenomics microbiome training
updated 7 months ago by 41k • written 7.1 years ago by ▴ 130
33
votes
4
replies
6.6k
views
News: Rosalind: A Novel Bioinformatics Education Platform
education
updated 9 months ago by 41k • written 11.2 years ago by ▴ 330
10
votes
4
replies
2.5k
views
News: Ensembl 77 is out
ensembl
updated 22 months ago by 41k • written 9.2 years ago by 23k
15
votes
4
replies
2.5k
views
News: Call For Nominations: 2013 Benjamin Franklin Award
benjamin-franklin-award award
updated 9 months ago by 41k • written 10.8 years ago by 158k
10
votes
4
replies
852
views
News: Good morning
good morning
updated 14 months ago by 99k • written 14 months ago by 86k
6
votes
4
replies
1.0k
views
News: Upcoming online training courses
Python R
2.3 years ago by carlopecoraro2 ★ 2.4k
0
votes
4
replies
1.9k
views
News: What NGS courses would you like us to prepare for 2016? (one week left)
NGS Survey Workshop
updated 16 months ago by 41k • written 8.0 years ago by 10k
19
votes
4
replies
2.3k
views
News: How to analyze NGS data: An overview of nine different IT solutions
NGS RNA-Seq DNA-Seq
updated 7 months ago by 41k • written 7.1 years ago by 10k
3
votes
4
replies
1.9k
views
News: OmicCircos was updated
R OmicCircos
updated 18 months ago by 41k • written 8.7 years ago by ▴ 50
10
votes
4
replies
1.1k
views
News: RNA-Seq Data Analysis Workshop - Join us in Berlin, Germany from March 27-30, 2023!
NGS transcriptomics workshop
updated 8 months ago by ▴ 30 • written 9 months ago by 10k
6
votes
4
replies
1.5k
views
News: Genomic variation course at the EBI - Updated
Ensembl 1000Genomes snps variation
updated 7 months ago by 41k • written 7.7 years ago by 23k
4
votes
4
replies
2.8k
views
News: Join The Dnanexus Developer Program
api cloud
updated 9 months ago by 41k • written 10.5 years ago by ▴ 30
1
vote
4
replies
1.9k
views
News: webserver of TCGA data www.tcgaportal.org
genome RNA-Seq TCGA gene
updated 6 months ago by 41k • written 5.5 years ago by ▴ 40
1,000 results • Page 2 of 20
Recent Votes
Comment: bwa mem hangs after a few thousand reads
Comment: bwa mem hangs after a few thousand reads
How to make a survival plot for a gene between High expression and low expression samples?
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
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Recent Replies
Comment: bwa mem hangs after a few thousand reads by cee28 ▴ 30
Here is the output with the "-v 4" flag (not showing all the @SQ comments) : > @SQ SN:chrUn_GL000214v1 LN:137718 @SQ SN:chrUn_KI270742v1 L…
Answer: Where is the index command? by Michael 53k
There is a ready-made package for samtools, simply do apt install samtools Also, your screenshot shows you are using the root account…
Comment: bwa mem hangs after a few thousand reads by tshtatland ▴ 180
Use option `-v` with value of 4 or above to help diagnose the issue: `-v INT` Control the verbose level of the output. This option has not…
Comment: bwa mem hangs after a few thousand reads by tshtatland ▴ 180
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.
Comment: 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 …
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