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898 results • Page 2 of 18
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News: Course: Applied Statistics and Bioinformatics with R and Bioconductor. (Berlin, 22-26 January 2018)
R next-gen-sequencing
updated 11 months ago by 43k • written 6.4 years ago by ★ 2.5k
2
votes
2
replies
3.1k
views
News: Upcoming Hands-On NGS Data Analysis Workshops 2018
Mapping Workshop RNA-Seq Quality-Control DNA-Seq
updated 11 months ago by 43k • written 6.4 years ago by 11k
0
votes
2
replies
918
views
News: The Practice of RADseq: Population Genomics Analysis with Stacks (RADS02) Early bird deadline approaching - 20th September
population-genomics radseq stacks
updated 7 months ago by ★ 1.7k • written 7 months ago by ▴ 110
3
votes
2
replies
1.2k
views
News: Course "Data Crunching: from hell to heaven", Udine, Italy, 25-27 July, 2018
NGS next-generation-sequencing
updated 11 months ago by 43k • written 5.9 years ago by ★ 3.0k
3
votes
2
replies
733
views
News: NCBI BLAST+ 2.14.1 Now Available
NCBI BLAST
8 months ago by PeterC_NCBI ▴ 410
1
vote
2
replies
1.4k
views
News: Webinar on Diagnosis of Rare Diseases using NGS Based Multi-gene Testing- Case studies by Dr.Aparna Ganapathy on 18 Apr 2018
variant-calling rare-disease dna-seq strand-ngs
updated 11 months ago by 43k • written 6.1 years ago by ▴ 70
12
votes
2
replies
436
views
News: 8th Berlin Summer School in NGS Data Analysis (June 10-14, 2024) - already half booked
Workshop RNA-Seq DNA-Seq Illumina
14 days ago by David Langenberger 11k
0
votes
2
replies
2.0k
views
News: Illumina iSeq 100 sequencer
firefly illumina iSeq100
updated 11 months ago by 43k • written 6.3 years ago by 141k
3
votes
2
replies
551
views
News: Announcement: Research Topic "Mechanistic, Machine Learning and Hybrid Models of the 'Other' Endocrine Regulatory Systems in Health and Disease", Vol…
mathematical-modelling endocrinology ML systems-biology machine-learning
25 days ago by Johannes W. Dietrich • 0
0
votes
2
replies
1.8k
views
News: Exponential growth of data in biomedicine needs a skilled and experienced workforce
R biotech gene RNA-Seq
updated 11 months ago by 43k • written 6.8 years ago by ▴ 70
0
votes
2
replies
2.1k
views
News: RNA-Seq Data Analysis Workshop in Berlin, Germany (13 - 16 March 2018)
NGS RNA-Seq sequencing
updated 11 months ago by 43k • written 6.3 years ago by 11k
1
vote
2
replies
1.8k
views
News: Course: Applied Statistics and Bioinformatics with R and Bioconductor
Statistics R Metagenomics Bioconductor
updated 11 months ago by 43k • written 6.8 years ago by ★ 2.5k
3
votes
2
replies
1.3k
views
News: Genome Informatics meeting software list
meetings genomics informatics software
updated 11 months ago by 43k • written 6.5 years ago by 26k
4
votes
2
replies
590
views
News: Standalone NCBI ClusteredNR database now available for download
ClusteredNR NCBI standalone BLAST
7 months ago by PeterC_NCBI ▴ 410
8
votes
2
replies
2.3k
views
News: The bioinformatics chat is a new podcast about bioinformatics. In the first episode we discuss Scallop, a transcriptome assembler
podcast Assembly RNA-Seq
updated 11 months ago by 43k • written 7.0 years ago by ▴ 120
2
votes
2
replies
2.6k
views
News: Interview Dealing with RADseq data: some tips from our instructors
NGS RADseq
updated 11 months ago by 43k • written 6.5 years ago by ★ 2.5k
5
votes
2
replies
919
views
News: The precisionFDA BioCompute Object App-a-thon has been extended to October 18!
BioCompute challenge
updated 10 months ago by 43k • written 4.8 years ago by ▴ 70
3
votes
2
replies
683
views
News: Participate in a NCBI/NIAID Virtual Codeathon: VCF Files for Population Genomics, Jul 31 - Aug 4, 2023
VCF SARS-CoV-2 NCBI Codeathon
11 months ago by PeterC_NCBI ▴ 410
1
vote
2
replies
1.0k
views
News: Sage Bionetworks is seeking researchers and data scientists to participate in software user research!
research software
updated 11 months ago by 43k • written 5.2 years ago by ▴ 30
0
votes
2
replies
690
views
News: Reduced functionality of Ensembl and Ensembl Genomes on the 13th November
ensembl
updated 10 months ago by 43k • written 4.5 years ago by 23k
4
votes
2
replies
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
5
votes
2
replies
1.7k
views
News: #scRNABIO & organoids meeting
single-cell-sequencing microfluidics organoids
updated 11 months ago by 43k • written 5.7 years ago by ▴ 320
3
votes
2
replies
1.0k
views
News: BETA Testing Opportunity for new RNA-seq data analysis tool
beta-testing RNA-seq multi-omics ngs
updated 11 months ago by 43k • written 5.3 years ago by • 0
1
vote
2
replies
756
views
News: Ensembl reduced functionality, early March
ensembl
updated 10 months ago by 43k • written 4.3 years ago by 23k
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
0
votes
2
replies
207
views
News: NGS & Microarray Custom Data Analysis Training Program
snp RNA-Seq next-gen-sequencing ChIP-Seq
updated 10 months ago by 43k • written 4.8 years ago by • 0
0
votes
2
replies
1.2k
views
News: 20% Off - Next-Generation Sequencing Data Analysis: A Practical Introduction (May 3-5, 2023 in Munich, Germany)
NGS DNA-Seq variant-calling RNA-Seq workshop
12 months ago by David Langenberger 11k
6
votes
2
replies
2.1k
views
News: RNA-Seq Data Analysis Workshop in Leipzig, Germany (09 - 12 October 2017)
NGS RNA-Seq workshop
updated 11 months ago by 43k • written 6.8 years ago by 11k
0
votes
2
replies
1.7k
views
News: 2 Days Hands on Workshop on Transcriptome-Seq Data Analysis
RNA-Seq sequencing SNP Assembly
updated 11 months ago by 43k • written 6.9 years ago by • 0
13
votes
2
replies
1.5k
views
News: Thank you Biostars!
meta
updated 10 months ago by 43k • written 5.0 years ago by ▴ 140
7
votes
2
replies
1.1k
views
News: NGS Data Analysis Workshops 2024
scRNA-seq dna-seq rna-seq nextflow
3 months ago by David Langenberger 11k
2
votes
2
replies
1.6k
views
News: User-friendly Bioinformatics From RNA Seq to Biological Interpretation
machine-learning RNA-seq
updated 11 months ago by 43k • written 5.8 years ago by ▴ 10
6
votes
2
replies
1.1k
views
News: Temporarily reduced functionality of Ensembl and Ensembl Genomes
Ensembl
updated 11 months ago by 43k • written 5.2 years ago by ★ 2.4k
2
votes
2
replies
516
views
News: Unix and Shell Scripting for Bioinformatics course
Bash Unix Shell-Scripting
4 months ago by carlopecoraro2 ★ 2.5k
1
vote
2
replies
1.7k
views
News: Workshop: Data analysis in high throughput biology. deadline today (2 places left)
next-gen R RNA-Seq
updated 11 months ago by 43k • written 7.0 years ago by ★ 2.5k
2
votes
2
replies
941
views
News: Interested in Machine Learning?
deep-learning machine-learning
updated 10 months ago by 43k • written 5.0 years ago by ★ 2.5k
0
votes
2
replies
1.4k
views
News: Webinar on fast and accurate DNA variant calling on 26 Apr 2017
variant-calling SNP gatk strand-ngs alignment
updated 11 months ago by 43k • written 7.0 years ago by ▴ 70
1
vote
2
replies
1.7k
views
News: NCBI Datasets - try it out!
Assembly refseq genome ncbi
updated 10 months ago by 43k • written 4.1 years ago by ★ 3.7k
1
vote
2
replies
2.4k
views
News: Workshop: Metagenomics, Metatranscriptomics, and multi'omics for microbial community studies (9-13 April 2018 in Berlin)
Metatranscriptomics Metagenomics
updated 11 months ago by 43k • written 6.2 years ago by ★ 2.5k
2
votes
2
replies
1.4k
views
News: GeNets: a unified web platform for network-based genomic analyses
networks pathways RNA-Seq visualization
updated 11 months ago by 43k • written 5.9 years ago by ★ 5.2k
5
votes
2
replies
1.5k
views
News: Google Dataset Search
google
updated 11 months ago by 43k • written 5.6 years ago by 161k
8
votes
2
replies
764
views
News: FINAL CALL - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (May 6-8, 2024 in Berlin)
single-cell sequencing
19 days ago by David Langenberger 11k
0
votes
2
replies
1.9k
views
News: Webinar: Multi-omics: Challenges, opportunities and application to biomarker discovery
biomarker next-gen-sequencing multiomics cancer
updated 11 months ago by 43k • written 6.8 years ago by ▴ 750
0
votes
2
replies
2.6k
views
News: PART FUNDED SCHOLARSHIPS - Coding, data management, and Shiny applications using RStudio for evolutionary biologists and ecologists - May 2017
Rstudio R Shiny
updated 11 months ago by 43k • written 7.0 years ago by ▴ 110
0
votes
2
replies
3.4k
views
News: Course: Practical GWAS using Linux and R. 23-27 October 2017, Berlin (Germany)
GWAS Linux R
updated 11 months ago by 43k • written 6.7 years ago by ★ 2.5k
0
votes
2
replies
1.1k
views
News: Training - Introduction to Deep Learning
Deep-Learning Machine-Learning Python-Programming
updated 10 months ago by 43k • written 3.8 years ago by ★ 2.5k
0
votes
1
reply
1.1k
views
News: New Alexa skill provides voice-based access to Protein Data Bank data
protein-structure pdb
updated 11 months ago by 43k • written 6.5 years ago by • 0
0
votes
1
reply
1.6k
views
News: Course: RADseq data analysis in Berlin (4-8/12/17). LAST CALL
STACKs RADseq
updated 11 months ago by 43k • written 6.4 years ago by ★ 2.5k
0
votes
1
reply
721
views
News: Our New Publication "Machine learning to support social media empowered patients in cancer care and cancer treatment decisions"
Machine-Learning Health-Informatics
updated 11 months ago by 43k • written 5.5 years ago by ▴ 20
2
votes
1
reply
1.6k
views
News: BIOSG17 Workshop on High Throughput Computing in Bioinformatics/Biomedicine using OSG
Workshop OSG Biomedicine HTC
updated 11 months ago by 43k • written 6.7 years ago by ▴ 10
898 results • Page 2 of 18
Recent Votes
Answer: To get p-values for the TPM
Comment: To get p-values for the TPM
A: Finding the centromere and telomere of cattle genome (Bos Taurus)
A: How to systematically check if a bam file is truncated
Comment: some error in building kraken2 database
Comment: Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
C: RSeQC Output from infer_experiment.py - what does it mean?
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Comment: To get p-values for the TPM by ATpoint 82k
Seconding that. Just use established pipelines, tximport => DESeq2, get your stats and call it a day. Custom pipelines paired with little e…
Comment: Should I remove unlocalized scaffols in reference genome before alignment? by njornet ▴ 20
I don't want reads incorrectly aligned to these scaffolds and loose information of relevant regions, but as you said that probably won't ha…
Comment: To get p-values for the TPM by dsull ★ 5.8k
Your post should be a "com, not an "answer". Use "Add Comment" to request clarifications on an answer someone has provided. tximport can t…
Comment: Use of Kraken output for functional analysis by gv • 0
Hello, you can use kraken-biom [kraken_biom.py] tool to get your Biom file from input kreport cheers,
Comment: To get p-values for the TPM by VITALA • 0
sir, deseq2 takes counts as inputs rightfor the hypothesis testing /to see the variance between the two groups, but in my case what i want …
Answer: To get p-values for the TPM by dsull ★ 5.8k
There are plenty of RSEM -> tximport -> DESeq2 tutorials online. Just follow one of those. DESeq2 will give you "p values" based on a Wa…
Comment: Is it Acceptable to Have Uniform Quality Scores in a FASTQ File? by dsull ★ 5.8k
I agree for the most part. However, Heng Li has argued that the one application that they are essential for is short read variant calling. …
Comment: interpretartion of a vcf file by samuelkalandarov2002 ▴ 10
In my case , there is only one sample : here is an example of a some variants generated using minipileup : #CHROM POS ID REF ALT QUAL FI…
Comment: How to calculate identity percentage between proteins contained in a FASTA file? by b.contreras.moreira ▴ 170
This should work if you know your sequences are related and can be globally aligned; otherwise it is safer to compute local alignments (for…
Comment: How to compare the quality of assemblies by kirillkirilenko ▴ 40
A haploid assembly is our goal. For purging we used prefix.p_ctg.gfa (assembly graph of primary contigs).
Comment: Is it Acceptable to Have Uniform Quality Scores in a FASTQ File? by Istvan Albert 100k
What I mean is that no sequencing run can be calibrated with the claimed precision. Where it could correctly distinguish between basecalls …
Comment: HaplotypeCaller - only SNPs by analyst ▴ 20
After HaplotypeCaller, you can use gatk SelectVariants to extract snps or indels from vcf file ([link to command][1]) [1]: https://gatk…
Comment: GTF file for Rhinolophus sinicus by atowns21 • 0
Ah gotcha. I guess what doesn't make sense to me is why a [paper][1] published in 2022 uses that reference genome. [1]: https://www.na…
Answer: Wilcox test using data slot (log normalized count values) of scRNA-seq between t by yxwucq • 0
The best way is to generate a pseudo-bulk aggregation then apply edgeR or DESeq2. You can also directly use wilcoxon on sc-level, since man…
Comment: How to solve this RoseTTAFold colaboratory error? by Mensur Dlakic ★ 27k
There is a dedicated Discord group that deals with everything related to ColabFold and its derivatives. Below is an invitation to join that…
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