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News:
Online course: Introduction to Python, February 12th-March 11th, 2024
python
courses
2 days ago by
Sole
• 0
0
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1
reply
135
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News:
Course: Genome Assembly and Annotation
Biodiversity
Genome-Assembly
Genome-Annotation
Long-reads
updated 1 day ago by
Ram
41k • written 5 days ago by
carlopecoraro2
★ 2.4k
0
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188
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News:
GWAS course
R
GWAS
updated 1 day ago by
Ram
41k • written 12 days ago by
carlopecoraro2
★ 2.4k
3
votes
0
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148
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News:
NCBI BLAST+ 2.2.15 now available for download
NCBI
Taxonomy
BLAST
14 days ago by
PeterC_NCBI
▴ 370
0
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130
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News:
Course - Introduction to R Shiny
R
Data-Visualisation
Shiny
updated 1 day ago by
Ram
41k • written 14 days ago by
carlopecoraro2
★ 2.4k
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128
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News:
Online expert taught RNA-Seq workshop
workshop
15 days ago by
fturner
▴ 10
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136
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News:
Course - RNAseq in non-model organisms
Pacbio
RNA-seq
Nanopore
updated 1 day ago by
Ram
41k • written 16 days ago by
carlopecoraro2
★ 2.4k
0
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0
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190
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News:
Next-Generation Sequencing Data Analysis: A Practical Introduction (Nov 29 – Dec 1 in Munich, Germany)
RNAseq
DNAseq
NGS
Workshop
19 days ago by
Lars
★ 1.0k
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171
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News:
Course - Computational Tumor Evolution
Tumor-Evolution
Cancer-Genomics
updated 1 day ago by
Ram
41k • written 19 days ago by
carlopecoraro2
★ 2.4k
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3
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1.0k
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News:
:: FINAL CALL :: A Practical Introduction to NGS Data Analysis (Nov 29 - Dec 1, 2023 in Munich, Germany) - only 2 seats left
DNA-Seq
NGS
RNA-Seq
Workshop
22 days ago by
David Langenberger
10k
0
votes
0
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162
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News:
Course: Genome Assembly using Oxford Nanopore Sequencing
Genome-Assembly
Nanopore
updated 1 day ago by
Ram
41k • written 23 days ago by
carlopecoraro2
★ 2.4k
0
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160
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News:
Genemod - Lab Management Software
lab-management-software
research
updated 22 days ago by
Ram
41k • written 23 days ago by
Genemod
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1
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183
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News:
course - Advanced Python Programming
Python-Programming
updated 27 days ago by
Ram
41k • written 27 days ago by
carlopecoraro2
★ 2.4k
3
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2
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2.2k
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News:
New ebook: From cell line to Command line to learn computational biology
unix
snakemake
computational-biology
RNA-seq
15 days ago by
Ming Tommy Tang
★ 3.6k
0
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0
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168
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News:
GWAS course
R
GWAS
updated 27 days ago by
Ram
41k • written 28 days ago by
carlopecoraro2
★ 2.4k
0
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0
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158
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News:
Course - Introduction to Bayesian Data Analysis
R
Statistics
Bayesian
Regression-Modeling
updated 1 day ago by
Ram
41k • written 4 weeks ago by
carlopecoraro2
★ 2.4k
16 results • Page
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Recent Votes
A: Compute mean depth coverage for exome data with paired end, overlapping, feature
C: Compute mean depth coverage for exome data with paired end, overlapping, feature
Answer: How to use Nextflow to call scripts from different environments?
Comment: An issue with gtf file (ballgownrsem)
Answer: how to calculate duplicated reads in single cell RNA 10x genomics data
What Are The Bioinformatics-Related Aliases Or Functions In Your Bashrc
A: Understand Samtools View Output
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Comment: Need help to find FASTA sequence from dbSNP
by
syedahumairagillani
• 0
Thank you for your response. Actually I am looking for fasta sequence of SNP as I shared via image, rather than just location. Would you p…
Answer: Calculate GC content for entire chromosome
by
colindaven
5.8k
In the meantime there is also seqtk gc https://github.com/lh3/seqtk seqtk gc Usage: seqtk gc [options] <in.fa> …
Comment: Building reference dbSNP file using WGS samples
by
analyst
▴ 10
I have employed your above suggested approach for BQSR (latter one). I will try former approach too (that does not require reference vcf fi…
Comment: An issue with gtf file (ballgownrsem)
by
cucindarko51
• 0
Thank you! After using this tool, I figured out that **ballgownrsem** can be run successfully only with GFF files.
Answer: Execute R command on specific termimal
by
ATpoint
78k
This is not how HPCs work. Things do not happen automatically and independent of the job scheduler. If you want to work interactively o…
Comment: Need help to find FASTA sequence from dbSNP
by
GenoMax
136k
Using [**EntrezDirect**][1] you can find the location of this SNP: $ esearch -db snp -query rs1815739 | esummary | xtract -pattern Doc…
Comment: Building reference dbSNP file using WGS samples
by
analyst
▴ 10
For variant calling I followed following steps: **Step 1** I first made a vcf file to be used for quality score recalibration later > c…
Comment: Need help to find FASTA sequence from dbSNP
by
Pierre Lindenbaum
158k
what does it mean ?
Answer: How to use Nextflow to call scripts from different environments?
by
ATpoint
78k
You can specify conda environments and containers directly in the modules, see for example: https://github.com/nf-core/modules/blob/master…
Comment: Issues while running blastx
by
GenoMax
136k
> ~/Downloads/uniprot_sprot.dat `dat` files are not blast index ready. You should download the `fasta` format file and create your own bla…
Comment: Strandedness of RNA-seq results
by
charles.feigin
• 0
Hi, coming here for the same reason. Libraries prepared with the Illumina Stranded mRNA Prep kit (dUTP-based). In hisat2 with --rf I get <…
Comment: How to interpret the discrepancy of assignment rate in featurecounts using forwa
by
charles.feigin
• 0
I'm having this exact same problem. PolyA RNA-Seq library, running with --fr in hisat2 gives a high fraction of concordant single-mappers, …
Comment: How to create a mutation frequency comparison plot?
by
saipra003
▴ 10
That's awesome thank you. Found out after a bit of researching that this is called a `Cleveland Dot Plot` if anyone else comes across this.
Comment: Cell ranger multi for demultiplexing FB files and GEX files
by
GenoMax
136k
Demultiplexing is typically done using Illumina software? Have you done this already?: https://www.10xgenomics.com/support/software/cell-ra…
Comment: bbmap split paired-end reads back into separated fastq files?
by
GenoMax
136k
If you simply want to merge "technical" sequencing replicates then you can do the following cat file1_R1.fastq file1_R1.fastq > merged…
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