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1,000 results • Page 5 of 20
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3
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3.0k
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News: -max_target_seqs 1 in NCBI standalone BLAST does not do what you think it does
blast
updated 6 months ago by 41k • written 5.1 years ago by 11k
4
votes
2
replies
1.2k
views
News: Hands-On Workshop: How to use bisulfite-treated sequencing to study DNA methylation (BS-Seq, Bisulfite-Seq, WGBS)
Workshop methylation bisulfite
updated 5 months ago by 41k • written 4.2 years ago by ★ 1.0k
4
votes
0
replies
466
views
News: A Practical Introduction to Single-Cell RNA-Seq Data Analysis (November 8-10, 2023 in Berlin, Germany)
NGS RNA-Seq single-cell workshop
5 months ago by David Langenberger 10k
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
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 9 months ago by 41k • written 9.7 years ago by ★ 2.2k
3
votes
1
reply
1.2k
views
News: UniProt: Change of FT and CC section in UniProtKB text format
uniprot protein
updated 6 months ago by 41k • written 4.2 years ago by ★ 2.3k
3
votes
3
replies
2.0k
views
News: Workshop: Berlin. Data manipulation and visualization with Python. 13-17 March (Registration deadline is today!!)
next-gen RNA-Seq genome SNP
updated 7 months ago by 41k • written 6.8 years ago by ★ 2.4k
3
votes
0
replies
250
views
News: gnomAD v4 released
gnomad
4 weeks ago by Pierre Lindenbaum 158k
3
votes
0
replies
1.0k
views
News: ONLINE TRAINING: Environmental Metagenomics
metagenomics nanopore assembly illumina
updated 9 months ago by 41k • written 2.9 years ago by ★ 2.4k
3
votes
0
replies
1.9k
views
News: Free Training in Bioinformatic analysis available with Pine Biotech T-BioInfo
RNA-Seq biotech next-gen-sequencing
updated 6 months ago by 41k • written 6.4 years ago by ▴ 70
3
votes
2
replies
487
views
News: NCBI BLAST+ 2.14.1 Now Available
NCBI BLAST
3 months ago by PeterC_NCBI ▴ 370
3
votes
0
replies
981
views
News: Online training - Unix and shell scripting for bioinformatics
Linux scripting Unix
updated 9 months ago by 41k • written 2.8 years ago by ★ 2.4k
3
votes
2
replies
575
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
6 months ago by PeterC_NCBI ▴ 370
3
votes
1
reply
643
views
News: Ensembl Pre! site retirement - 31st January 2021
Ensembl
updated 9 months ago by 41k • written 3.2 years ago by ★ 2.3k
3
votes
0
replies
2.4k
views
News: Samtools/htslib/bcftools 1.1 released
htslib samtools
updated 8 months ago by 41k • written 9.2 years ago by 104k
3
votes
0
replies
1.2k
views
News: Course on Programming for Evolutionary Biology
Evolution R genome Python
updated 6 months ago by 41k • written 5.0 years ago by ★ 2.2k
3
votes
0
replies
687
views
News: Free Ensembl Browser and REST API virtual workshops in March
Ensembl REST-API genome-browser training workshop
updated 9 months ago by 41k • written 2.8 years ago by ▴ 270
3
votes
3
replies
2.2k
views
News: Innocentive Challenge: Identify Organisms From A Stream Of Dna Sequences And Get $1,000,000
ngs
updated 9 months ago by 41k • written 10.6 years ago by ▴ 830
3
votes
0
replies
725
views
News: ::FINAL CALL:: NGS Data Analysis for Beginners - 11-13 December 2019 in Munich, Germany (2 seats left)
NGS Workshop
updated 5 months ago by 41k • written 4.1 years ago by 10k
3
votes
0
replies
1.3k
views
News: Analysis of single cell RNA-seq data - Berlin 23 -27 March 2020
scRNA-seq RNA-Seq
updated 6 months ago by 41k • written 4.4 years ago by ★ 2.4k
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
3
votes
1
reply
2.2k
views
News: NCBI : New API Keys for the E-utilities
pubmed eutils ncbi api
updated 6 months ago by 41k • written 6.1 years ago by 158k
3
votes
0
replies
967
views
News: Free online Ensembl course
webinar Ensembl mooc training online
updated 6 months ago by 41k • written 5.3 years ago by 23k
3
votes
0
replies
1.8k
views
News: Deep learning in GATK4
GATK4 deep-learning GATK
updated 6 months ago by 41k • written 5.9 years ago by ★ 1.2k
3
votes
0
replies
141
views
News: NCBI BLAST+ 2.2.15 now available for download
NCBI Taxonomy BLAST
10 days ago by PeterC_NCBI ▴ 370
3
votes
0
replies
1.0k
views
News: New command line tool for annotating variants, vai.pl
UCSC SNP VAI
updated 6 months ago by 41k • written 6.5 years ago by ▴ 580
3
votes
0
replies
901
views
News: Invitation to submit articles to the Bioconductor Gateway on F1000Research
bioconductor
updated 6 months ago by 41k • written 5.7 years ago by 26k
3
votes
0
replies
660
views
News: Testing and feedback of upcoming salmon release
salmon RNA-Seq
updated 6 months ago by 41k • written 4.2 years ago by 6.3k
3
votes
1
reply
532
views
News: Free web seminars related to small non-coding RNA bioinformatics
smallRNA microRNA
updated 11 months ago by 41k • written 19 months ago by ▴ 60
3
votes
1
reply
6.6k
views
News: LinkedOmics - a web portal for TCGA/CPTAC data
TCGA cptac cancer
updated 6 months ago by 41k • written 6.0 years ago by 136k
3
votes
1
reply
4.7k
views
News: Genome Aggregation Database
exac genome database variants
updated 7 months ago by 41k • written 7.1 years ago by 158k
3
votes
1
reply
871
views
News: Do you want to learn how to analyze your genomic data using R and Bioconductor?
Genomics R Bioconductor
updated 6 months ago by 41k • written 4.4 years ago by ★ 2.4k
3
votes
0
replies
1.6k
views
News: Ensembl in the Google Summer of Code 2016
ensembl GSOC Google
updated 8 months ago by 41k • written 7.8 years ago by 23k
3
votes
1
reply
768
views
News: PrecisionFDA has won a FedHealth IT award!!
platform cloud-based precision-medicine award
updated 6 months ago by 41k • written 4.5 years ago by ▴ 150
3
votes
2
replies
2.1k
views
News: New ebook: From cell line to Command line to learn computational biology
unix snakemake computational-biology RNA-seq
11 days ago by Ming Tommy Tang ★ 3.6k
3
votes
1
reply
2.4k
views
News: Variathon V0.1 - 2013 - Comparing Existing Or New Pipelines For Variant Calling In Terms Of Accuracy And Efficiency
ngs conference
updated 9 months ago by 41k • written 10.8 years ago by 158k
3
votes
1
reply
1.3k
views
News: Ensembl in Google Summer of Code
Ensembl Internship Google-Summer-of-Code GSOC
updated 6 months ago by 41k • written 6.7 years ago by 23k
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
3
votes
0
replies
1.8k
views
News: Dnanexus Is Giving Away 1 Free Agbt 4-Day Badge
next-gen conference
updated 9 months ago by 41k • written 10.9 years ago by ▴ 30
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
3
votes
2
replies
2.5k
views
News: Samtools/htslib v1.2 released
htslib samtools bcftools
updated 8 months ago by 41k • written 8.8 years ago by 104k
3
votes
2
replies
1.1k
views
News: Course "Data Crunching: from hell to heaven", Udine, Italy, 25-27 July, 2018
NGS next-generation-sequencing
updated 6 months ago by 41k • written 5.5 years ago by ★ 3.0k
3
votes
1
reply
2.6k
views
News: Ngs Session At Biocomp Bg 2012 Conference!
next-gen-sequencing
updated 9 months ago by 41k • written 11.5 years ago by ▴ 50
3
votes
0
replies
746
views
News: Phylogenomics course in Berlin
snp R next-gen
updated 5 months ago by 41k • written 4.0 years ago by ★ 2.4k
3
votes
0
replies
1.3k
views
News: NIH Strategic Plan for Data Science
nih data-science
updated 6 months ago by 41k • written 5.7 years ago by 136k
3
votes
2
replies
940
views
News: BETA Testing Opportunity for new RNA-seq data analysis tool
beta-testing RNA-seq multi-omics ngs
updated 6 months ago by 41k • written 4.9 years ago by • 0
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
3
votes
0
replies
3.2k
views
News: Tumorportal - A Tool For Exploring A Pan-Cancer Dataset
tcga cancer-genomics
updated 9 months ago by 41k • written 9.8 years ago by 19k
3
votes
0
replies
1.6k
views
News: New web BLAST default parameters and search limits are now in place at NCBI
www-blast blast ncbi
updated 5 months ago by 41k • written 3.5 years ago by 136k
3
votes
1
reply
882
views
News: Results are now available for the precisionFDA NCI-CPTAC Multi-omics Enabled Sample Mislabeling Correction Challenge!
precisionFDA NCI challenge algorithm multi-omics
updated 6 months ago by 41k • written 4.8 years ago by ▴ 60
1,000 results • Page 5 of 20
Recent Votes
Comment: Problematic fastq files...How can we trust them?
Comment: Problematic fastq files...How can we trust them?
Answer: GO categorization
Comment: Using metagenome assembly and binning to identify and mitigate contamination in
Answer: How to obtain data on the coordinates of the Exon region from UCSC
Answer: How to obtain data on the coordinates of the Exon region from UCSC
Answer: How to obtain data on the coordinates of the Exon region from UCSC
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Scholar to ATpoint 78k
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Recent Replies
Comment: Bioinformatics by ATpoint 78k
Converting data from one to another format and repairing gene names turned dates. Yes, great field.
Comment: Yes .. BBMap can do that! - Part III clumpify (mark (and dedupe) duplicates with by GenoMax 136k
Yes that should be true. I will let https://www.biostars.org/u/14684/ confirm.
Comment: From TPM to raw counts by Gama313 ▴ 120
Thanks for the answe and the linkI used bioinfokit tpm formula to calculate tpm from bulk which is the same formula given in your link: A= …
Comment: From TPM to raw counts by Gama313 ▴ 120
Thanks Brian for the suggestion. However, I did the whole process, from bulk counts generation, to data transformation and scrna deconvolut…
Answer: Are 10x cellranger-arc ATAC bam files deduplicated? by swbarnes2 13k
My experience with regular 10x bam files is that duplicates are not removed, but they are flagged as duplicates. So take a look at the …
Comment: Can I use TCGA-LUAD RNAseq count that had already normalized by RSEM in Limma-vo by fluke • 0
Thanks a lot for your answer, I’m confused between RSEM expected count and RSEM normalized count. I’m working on this dataset from UCSC ht…
Answer: From TPM to raw counts by Istvan Albert 99k
In principle, the TPM formula can be reverted, see the timeless post * [What the FPKM? A review of RNA-Seq expression units][1] In p…
Comment: Low coverage whole genome sequencing reveal excess heterozygosity for multiple S by beausoleilmo ▴ 560
You're right, I wasn't explaining the problem clearly. Thanks for the directions! - The depth; coverage ~3.00X ± 2.50 SD - The sequen…
Comment: Using metagenome assembly and binning to identify and mitigate contamination in by Mensur Dlakic ★ 25k
All good points, especially about multiple copies of single-copy genes. I am doing error-correction in my assemblies, but was making an edu…
Comment: Can I use TCGA-LUAD RNAseq count that had already normalized by RSEM in Limma-vo by CTLong ▴ 20
Yes, normalized RSEM counts from TCGA can be used as input for Limma Voom. Please check this post https://support.bioconductor.org/p/63981/…
Comment: How to obtain data on the coordinates of the Exon region from UCSC by ayasu • 0
Sorry for the delay in expressing my thanks. I found the advice to look at the information from MySQL very useful. I will also refer to t…
Comment: From TPM to raw counts by Brian Bushnell 19k
I'm posting this as a comment instead of an answer specifically because it's just what I would do and I don't know if it's the best approac…
Comment: Using metagenome assembly and binning to identify and mitigate contamination in by Brian Bushnell 19k
In most cases error-correction should take care of error-spawned fake minor alleles, though... > If you want to convince yourself of this,…
Answer: Using metagenome assembly and binning to identify and mitigate contamination in by Mensur Dlakic ★ 25k
It is a valid question, and I particularly like when posters err on the side of providing more than less detail. Metagenomic binning can be…
Answer: Low coverage whole genome sequencing reveal excess heterozygosity for multiple S by Brian Bushnell 19k
I don't understand your plot. Perhaps a legend would help? I also don't know what you mean by "genotype frequency"; is that the ratio of …
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