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News: A Summary Of All Encode Related News On The Openhelix Blog: Encode Floods The News
encode
updated 7 months ago by 40k • written 11.1 years ago by 98k
13
votes
8
replies
2.5k
views
News: NCBI is going to eliminate GI identifiers
ncbi GI
updated 5 months ago by 40k • written 7.5 years ago by ★ 2.9k
13
votes
2
replies
1.3k
views
News: Thank you Biostars!
meta
updated 4 months ago by 40k • written 4.4 years ago by ▴ 140
13
votes
7
replies
5.4k
views
News: Free HiSeq X Ten human genome fastq test data
HiSeq-X-Ten Human-genome Fastq next-gen
updated 21 months ago by 40k • written 9.2 years ago by ★ 1.8k
12
votes
3
replies
2.3k
views
News: Google Summer of Code and Open Bioinformatics Foundation is looking for students
GSoC open-source
updated 5 months ago by 40k • written 7.5 years ago by 7.9k
12
votes
2
replies
1.3k
views
News: Free online Ensembl course, now with a fixed sign-up link
ensembl course training
updated 5 months ago by 40k • written 6.6 years ago by 23k
12
votes
4
replies
1.8k
views
News: #NGSchool2018 summer school in bioinformatics
NGSchool Personalised-Medicine Nanopore
updated 4 months ago by 40k • written 5.3 years ago by ▴ 290
12
votes
0
replies
3.2k
views
News: Looking For Feedback On The Json Output For Ncbi E-Utilities
ncbi eutils
updated 7 months ago by 40k • written 10.9 years ago by ▴ 360
12
votes
17
replies
3.6k
views
6 follow
News: A programming language for living cells [Cello]
dna sequence research language
updated 5 months ago by 40k • written 7.5 years ago by 11k
12
votes
8
replies
6.7k
views
News: rRNA Depletion / Poly-A Selection Responsible for RNA-seq Bias
rRNA-depletion RNA-seq-bias
updated 6 months ago by 40k • written 9.2 years ago by ▴ 640
12
votes
8
replies
3.2k
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 7 months ago by 40k • written 10.2 years ago by 10k
12
votes
7
replies
3.6k
views
News: Welcome Ensembl REST with more endpoints!
ensembl rest-api
updated 6 months ago by 40k • written 9.0 years ago by ★ 5.2k
11
votes
11
replies
1.5k
views
8 follow
News: Python Data Visualization Course. Last 3 spots left
next-gen
updated 4 months ago by 40k • written 4.9 years ago by ★ 2.4k
11
votes
13
replies
2.8k
views
News: Ensembl datacentre shut-down: Friday 26th August - Tuesday 30th August 2016
Maintenance Ensembl
updated 5 months ago by 40k • written 7.1 years ago by ★ 2.3k
11
votes
2
replies
1.4k
views
News: ASA discusses limitations of p-values what are the alternatives?
statistics p-value
updated 5 months ago by 40k • written 7.5 years ago by 14k
11
votes
1
reply
2.0k
views
News: Upcoming Hands-On Workshop: De Novo Transcriptome Assembly and Analysis
Workshop Assembly RNA-Seq
updated 5 months ago by 40k • written 7.3 years ago by 10k
11
votes
25
replies
5.4k
views
15 follow
News: Questions for the NCBI Next Generation Sequencing Online Workshop Can be Posted with the NCBI_NOW Tag
NCBI_NOW
updated 6 months ago by 40k • written 8.0 years ago by ▴ 330
11
votes
2
replies
2.2k
views
News: Ensembl 76 is out
Genome-browser Ensembl
updated 21 months ago by 40k • written 9.1 years ago by 23k
11
votes
1
reply
4.0k
views
News: GATB will provide developer support via Biostar
minia dsk gatb
updated 20 months ago by 40k • written 9.4 years ago by ★ 1.5k
11
votes
0
replies
3.2k
views
News: BWA 0.7.11 is out, supports ALT contigs
BWA
updated 6 months ago by 40k • written 8.8 years ago by 103k
11
votes
2
replies
3.5k
views
News: Coursera: Computational Molecular Evolution
course
updated 7 months ago by 40k • written 10.4 years ago by 157k
11
votes
1
reply
2.7k
views
News: NGS Data Analysis Workshop for Beginners in Munich (full)
RNA-Seq training NGS workshop
updated 14 months ago by 40k • written 7.2 years ago by 10k
10
votes
7
replies
2.3k
views
News: Linux for Biologists e-book (free to read online)
linux python galaxy conda virtual-machine
24 months ago by vimalkvn ▴ 310
10
votes
0
replies
3.3k
views
News: 1000 Genomes data on GRCh38
1000Genomes GRCh38 alts alignment
updated 13 months ago by 40k • written 8.0 years ago by ▴ 100
10
votes
4
replies
1.6k
views
News: 3rd Berlin Summer School in NGS Data Analysis (2 seats just became available)
NGS RNA-Seq DNA-Seq
updated 4 months ago by 40k • written 4.7 years ago by 10k
10
votes
2
replies
3.1k
views
News: Biostars based Q&A for Bioconductor: http://support.bioconductor.org
RNA-Seq bioconductor
updated 21 months ago by 40k • written 9.0 years ago by 157k
10
votes
4
replies
789
views
News: Good morning
good morning
updated 12 months ago by 98k • written 12 months ago by 86k
10
votes
4
replies
981
views
News: RNA-Seq Data Analysis Workshop - Join us in Berlin, Germany from March 27-30, 2023!
NGS transcriptomics workshop
updated 6 months ago by ▴ 30 • written 7 months ago by 10k
10
votes
0
replies
2.8k
views
News: Cfp: Camda 2013 Challenge: Big Data In Life Sciences
ngs conference
updated 7 months ago by 40k • written 10.5 years ago by ▴ 240
10
votes
1
reply
1.9k
views
News: Run on 1st Berlin Summer School in NGS Data Analysis
DNA-Seq RNA-Seq NGS
updated 5 months ago by 40k • written 6.6 years ago by 10k
10
votes
1
reply
3.0k
views
News: Ucsc: Dna Sequences In Web Pages Indexed By Bing.Com / Microsoft Research (All Phenotype And Literature Tracks)
web ucsc
updated 6 months ago by 40k • written 9.7 years ago by 157k
10
votes
7
replies
2.2k
views
News: Free draft copy of book on bioinformatics tools
alignment Assembly RNA-seq next-gen
updated 8 months ago by 40k • written 8.4 years ago by ★ 1.1k
10
votes
17
replies
3.0k
views
7 follow
News: Tell us what you think of the ENA browser?
ena
updated 5 months ago by 40k • written 6.9 years ago by ★ 1.8k
10
votes
0
replies
2.0k
views
News: Pan-Cancer Analysis of RNA Binding Proteins in ~7000 tumor samples
Pan-Cancer mutations TCGA RNA-seq cancer-driver
updated 4 months ago by 40k • written 5.7 years ago by ▴ 850
10
votes
4
replies
2.5k
views
News: Ensembl 77 is out
ensembl
updated 20 months ago by 40k • written 9.0 years ago by 23k
9
votes
5
replies
2.9k
views
News: The NIH Software Discovery Index | We invite your comments
NIH software-catalog
updated 20 months ago by 40k • written 9.0 years ago by 26k
9
votes
5
replies
10.0k
views
8 follow
News: Online course: Learn Bioinformatics in 100 hours
biostars online-course
updated 7 months ago by 40k • written 6.1 years ago by 98k
9
votes
5
replies
3.4k
views
News: SAMTOOLS 1.4 released
samtools
updated 4 months ago by 40k • written 6.5 years ago by 157k
9
votes
3
replies
3.1k
views
News: New Human Genome Assembly (Grch38) Released
human-genome assembly
updated 7 months ago by 40k • written 9.8 years ago by 157k
9
votes
0
replies
2.1k
views
News: Commercial advertising on Biostars
meta biostars advertising
updated 6 months ago by 40k • written 9.0 years ago by 98k
9
votes
6
replies
1.9k
views
News: No more hidden solutions in bioinformatics
precision-medicine genome-sequencing
updated 8 months ago by 40k • written 8.4 years ago by ★ 1.2k
9
votes
4
replies
3.5k
views
News: Conference Announcement - Camda 2013
conference classification
updated 7 months ago by 40k • written 10.7 years ago by ▴ 240
9
votes
4
replies
1.4k
views
News: Human Cell Atlas Data Coordination Platform Data Release Questionaire
RNA-Seq
updated 4 months ago by 40k • written 5.6 years ago by ★ 1.8k
9
votes
3
replies
4.6k
views
News: Bioinformatics Contest 2020. Call for problems
contest
updated 3 months ago by 40k • written 4.0 years ago by ▴ 860
9
votes
2
replies
14k
views
News: Bio-Linux 8 is now available
genome rna-seq alignment Assembly next-gen
updated 21 months ago by 40k • written 9.2 years ago by ★ 2.2k
9
votes
9
replies
7.2k
views
News: NovaSeq quality analysis
sequencing
updated 4 months ago by 40k • written 6.3 years ago by 18k
9
votes
5
replies
8.4k
views
News: A New Rest Based Api For Kegg: Kyoto Encyclopedia Of Genes And Genomes
kegg api
updated 7 months ago by 40k • written 10.9 years ago by ▴ 50
9
votes
4
replies
2.1k
views
7 follow
News: fastp 0.22 released, with new FASTQ deduplication feature.
fastp
updated 8 weeks ago by 40k • written 2.1 years ago by ★ 2.4k
8
votes
1
reply
2.6k
views
News: An Interesting Article On Bioinformatics Education With Some Press For Biostar
meta biostars
updated 7 months ago by 40k • written 10.2 years ago by 11k
8
votes
0
replies
1.2k
views
News: Final Call - Hands-On RNA-Seq Data Analysis Workshop - only 2 seats left
data-analysis RNA-Seq workshop
updated 3 months ago by 40k • written 4.2 years ago by 10k
1,000 results • Page 2 of 20
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Comment: demultiplexing with guppy_basecaller and guppy_barcoder using --detect_mid_stran
A: What'S The Difference Between Cds And Orf?
What'S The Difference Between Cds And Orf?
Answer: Filtering transcription factor and HOMER and ENCODE
Answer: Apple Silicon M1 for sequencing and base calling in MinION Mk1B Oxford Nanopore
Answer: Number of accessible regions included by DESeq2 to generate the PCA plot with th
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Answer: Have some issues in running prokka on WSL by Philipp Bayer 7.9k
It looks like the conda-installed BLAST has issues with the system's ZSTD, which is probably some WSL weirdness. You *might* be able to fix…
Comment: Network analysis with cytoscape by Chris ▴ 180
Sure, the network represents the different expressed genes in my RNA-seq. I choosed string protein query.
Comment: Network analysis with cytoscape by Yogi ▴ 40
A few questions. 1. What does the network represent? 2. Can you insert a high level picture of the network (or pictures) if you want to zo…
Answer: Chip-Seq and correlation of bam file by jared.andrews07 ★ 15k
Use [deepTools' plotCorrelation function](https://deeptools.readthedocs.io/en/develop/content/tools/plotCorrelation.html).
Answer: Transcription factor co-localization p-values by jared.andrews07 ★ 15k
[regioneR](https://bioconductor.org/packages/release/bioc/html/regioneR.html) seems to be what you want.
Comment: Complex multifactorial DE analysis with limma/edgeR based on rnaseq data by LChart 3.4k
> Our major biological questions are: to have a general comparison of cancer vs normal “treatment” conditions; In addition if doable, to co…
Comment: Which function is best for pathway analysis? by Chris ▴ 180
Thanks @luffy! Great material but seem they didn't mention how to customize the background genes depend on our data.
Comment: CollectRnaSeqMetrics (Picard) output to convert FeatureCounts into TPM by camillab. ▴ 140
I have calculate from this [tutorial][1]. so basically it retrieve the normalized counts matrix using `Deseq2` . Do you think it is correct…
Comment: Apple Silicon M1 for sequencing and base calling in MinION Mk1B Oxford Nanopore by GenoMax 134k
`dorado` can't demultiplex data as yet (v.0.3.4). Also no adapter trimming. So something to keep in mind if you are switching. To address …
Comment: Frustrated with DEA results by dsull ★ 4.7k
Let the data speak. If there's no difference, then there's no difference. Human clinical data is always messy and unpredictable, especiall…
Comment: Apple Silicon M1 for sequencing and base calling in MinION Mk1B Oxford Nanopore by Ram 40k
I don't think they bought the Mac Studio just for the MiniON. If they did, that might be overkill. All things considered, I'd prefer an App…
Comment: Apple Silicon M1 for sequencing and base calling in MinION Mk1B Oxford Nanopore by ATpoint 77k
Wondering why investing all that money for such an overpriced piece of hardware. You could get an equivalent Windows or Linux workstation f…
Answer: Apple Silicon M1 for sequencing and base calling in MinION Mk1B Oxford Nanopore by Christopher ▴ 10
I'm using a Mac Studio with M1 Ultra chip to sequence with a MinION Mk1B now and it's working great! Fast basecalling and adaptive sequenci…
Comment: ncbi error report log for validate fastq issue by GenoMax 134k
You may want to use `--split-files` instead. With your `--split-spot` option looks like you end up with interleaved data files. Unless you …
Comment: Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor by Ram 40k
Nope, I kinda gave up. I got to the image on what fragment size is (https://www.biostars.org/p/106291/#106344) but cannot figure out how to…
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