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2
votes
1
reply
527
views
Proper Bowtie2 settings for snp calling applications
Illumina
SNP
Freebayes
Bowtie2
updated 9 months ago by
Ram
43k • written 9 months ago by
Denis
▴ 310
2
votes
1
reply
746
views
Comment:
Comment: Illumina reads preprocessing best practice for snp calling applications
9 months ago by
Denis
▴ 310
5
votes
3
replies
746
views
Illumina reads preprocessing best practice for snp calling applications
Illumina
snp
updated 21 days ago by
Enrique
• 0 • written 9 months ago by
Denis
▴ 310
0
votes
0
replies
358
views
Correct tRNA genes nomenclature in plant chloroplast genomes
chloroplast
tRNA
genes
genome
11 months ago by
Denis
▴ 310
0
votes
0
replies
441
views
Clade model C of PAML to detect positive selection in coding nucleotide sequences
selection
evolution
PAML
CDS
14 months ago by
Denis
▴ 310
0
votes
0
replies
382
views
Application of the branch, site and branch-site models for detecting selection with codeml (PAML)
evolution
codeml
PAML
15 months ago by
Denis
▴ 310
0
votes
0
replies
306
views
Alternatives to DendroCypher tool for large trees labeling
selection
PAML
codeml
pressure
15 months ago by
Denis
▴ 310
0
votes
1
reply
1.0k
views
Comment:
Comment: Phylogeny inference on complete chloroplast genomes with IQ-TREE software
16 months ago by
Denis
▴ 310
3
votes
3
replies
1.0k
views
Phylogeny inference on complete chloroplast genomes with IQ-TREE software
IQ-TREE
genomics
phylogenetics
updated 16 months ago by
shelkmike
★ 1.2k • written 16 months ago by
Denis
▴ 310
11
votes
6
replies
7.3k
views
6 follow
Making nice plots based on the different metrics from VCF file
snp
R
genome
updated 17 months ago by
cocchi.e89
▴ 270 • written 5.4 years ago by
Denis
▴ 310
0
votes
0
replies
669
views
Comment:
Comment: Advanced search for the sequences on NCBI website
21 months ago by
Denis
▴ 310
6
votes
2
replies
669
views
Advanced search for the sequences on NCBI website
GenBank
NCBI
21 months ago by
Denis
▴ 310
0
votes
0
replies
8.7k
views
Comment:
Comment: Remove not polymorphic sites from VCF
2.2 years ago by
Denis
▴ 310
0
votes
0
replies
413
views
Filter out individuals of the multisample VCF file with a high proportion of missing calls by bcftools
SNP
VCF
missing_data
genotyping
2.2 years ago by
Denis
▴ 310
0
votes
0
replies
8.7k
views
Comment:
Comment: Remove not polymorphic sites from VCF
2.2 years ago by
Denis
▴ 310
0
votes
1
reply
2.5k
views
Comment:
Comment: Unexpected Bowtie2 behavior with --phred64 and --phred33 flags
2.3 years ago by
Denis
▴ 310
0
votes
1
reply
2.5k
views
Comment:
Comment: Unexpected Bowtie2 behavior with --phred64 and --phred33 flags
2.3 years ago by
Denis
▴ 310
0
votes
0
replies
482
views
Mapping of tag sequences to the reference genome in Tassel 5 GBS v2 Pipeline
genotyping
Genotyping-by-sequencing
Tassel
Tassel_GBS_Pipeline
bowtie2
2.3 years ago by
Denis
▴ 310
2
votes
1
reply
615
views
Get rid of multimapped and unmapped reads for snp calling improvement
genome
mapping
SNP
Illumina
updated 2.4 years ago by
ATpoint
82k • written 2.4 years ago by
Denis
▴ 310
0
votes
0
replies
661
views
Does the SOAP (BGI) website mirror exist
software
SOAP
updated 2.6 years ago by
410380015
• 0 • written 2.6 years ago by
Denis
▴ 310
0
votes
0
replies
1.1k
views
Comment:
Comment: Understandig of some bbmerge command line settings
2.6 years ago by
Denis
▴ 310
2
votes
2
replies
1.1k
views
Understandig of some bbmerge command line settings
software
amplicons
bbmerge
2.6 years ago by
Denis
▴ 310
6
votes
7
replies
3.1k
views
Primers trimming from Illumina paired-end reads by BBDuk software
Illumina
adapter
BBDuk
trimming
amplicons
PCR
updated 2.6 years ago by
GenoMax
142k • written 2.6 years ago by
Denis
▴ 310
0
votes
1
reply
3.1k
views
Comment:
Comment: Primers trimming from Illumina paired-end reads by BBDuk software
2.6 years ago by
Denis
▴ 310
0
votes
1
reply
3.1k
views
Comment:
Comment: Primers trimming from Illumina paired-end reads by BBDuk software
2.6 years ago by
Denis
▴ 310
0
votes
1
reply
3.1k
views
Comment:
Comment: Primers trimming from Illumina paired-end reads by BBDuk software
2.6 years ago by
Denis
▴ 310
0
votes
0
replies
454
views
Reads preparation steps for amplicon metagenomics
PCR
Metagenomics
2.7 years ago by
Denis
▴ 310
0
votes
0
replies
1.4k
views
Comment:
Comment: de novo annotation of plants genome
2.9 years ago by
Denis
▴ 310
0
votes
0
replies
658
views
Comment:
Comment: Is removing of the one trailing nucleotide in Illumina reads necessary step of
3.0 years ago by
Denis
▴ 310
3
votes
2
replies
658
views
Is removing of the one trailing nucleotide in Illumina reads necessary step of data preprocessing
Illumina
Preprocessing
3.0 years ago by
Denis
▴ 310
6
votes
3
replies
8.8k
views
The fastest way to download a list of SRR accessions from Sequence Read Archive with sratoolkit
sequence
genome
updated 3.2 years ago by
kostaspildish
▴ 20 • written 4.3 years ago by
Denis
▴ 310
0
votes
0
replies
1.3k
views
Comment:
C: Running Mauve on circular genomes
3.3 years ago by
Denis
▴ 310
0
votes
1
reply
1.3k
views
Comment:
C: Running Mauve on circular genomes
3.3 years ago by
Denis
▴ 310
0
votes
1
reply
1.3k
views
Comment:
C: Running Mauve on circular genomes
3.3 years ago by
Denis
▴ 310
0
votes
0
replies
1.2k
views
Comment:
C: Using DESeq2 for DE analysis of microRNA data
3.4 years ago by
Denis
▴ 310
6
votes
2
replies
1.2k
views
Using DESeq2 for DE analysis of microRNA data
RNA-Seq
R
3.4 years ago by
Denis
▴ 310
0
votes
0
replies
2.0k
views
Comment:
C: Merge overlapping and adjacent features in the BED file having the same label in
3.5 years ago by
Denis
▴ 310
5
votes
5
replies
2.0k
views
Merge overlapping and adjacent features in the BED file having the same label in the name (4-th) column
genome
R
updated 3.5 years ago by
Alex Reynolds
35k • written 3.5 years ago by
Denis
▴ 310
0
votes
0
replies
2.0k
views
Comment:
C: Merge overlapping and adjacent features in the BED file having the same label in
3.5 years ago by
Denis
▴ 310
0
votes
0
replies
655
views
Circos could not open image.conf error
software error
3.5 years ago by
Denis
▴ 310
0
votes
6
replies
1.3k
views
Running Mauve on circular genomes
genome
alignment
3.5 years ago by
Denis
▴ 310
0
votes
1
reply
4.2k
views
Comment:
C: How to perform alignment of nucleotide sequence containing ambiguous bases
4.0 years ago by
Denis
▴ 310
0
votes
1
reply
4.2k
views
Comment:
C: How to perform alignment of nucleotide sequence containing ambiguous bases
4.0 years ago by
Denis
▴ 310
0
votes
1
reply
46k
views
Comment:
C: Fast download of FASTQ files from the European Nucleotide Archive (ENA)
4.1 years ago by
Denis
▴ 310
0
votes
1
reply
46k
views
Comment:
C: Fast download of FASTQ files from the European Nucleotide Archive (ENA)
4.1 years ago by
Denis
▴ 310
0
votes
0
replies
2.4k
views
Comment:
C: Prefetch error while downloading data from sequence read archive
4.1 years ago by
Denis
▴ 310
0
votes
0
replies
2.4k
views
Comment:
C: Prefetch error while downloading data from sequence read archive
4.1 years ago by
Denis
▴ 310
0
votes
2
replies
2.4k
views
Comment:
C: Prefetch error while downloading data from sequence read archive
4.1 years ago by
Denis
▴ 310
2
votes
5
replies
2.4k
views
Prefetch error while downloading data from sequence read archive
software error
4.1 years ago by
Denis
▴ 310
0
votes
0
replies
4.0k
views
Comment:
C: Aspera ascp command line utility inside prefetch call to facilitate SRA data dow
4.1 years ago by
Denis
▴ 310
138 results • Page
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