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0
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5
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991
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How long should the AAA... sequence be at the end of read, so that fastqc and multiqc consider it as poly- tail
multiqc fastqc polyA
updated 7 months ago by 22k • written 7 months ago by ▴ 50
0
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0
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577
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Nucleotide substitution model and neighbor-joining tree
phylogeny substitution mega neighbor-joining modeltest
13 months ago by poecile.pal ▴ 50
0
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0
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321
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TrN (df = k+5) and TrNe (df = k+2) - which of these Tamura-Nei model variants is used in MEGAx?
Tamura-Nei phylogeny phangorn modelTest mega
13 months ago by poecile.pal ▴ 50
0
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0
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638
views
Comment: Comment: wrong quality plots in fastqc output
14 months ago by poecile.pal ▴ 50
0
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1
reply
638
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Comment: Comment: wrong quality plots in fastqc output
14 months ago by poecile.pal ▴ 50
2
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3
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638
views
wrong quality plots in fastqc output
samtools fastqc fastq wgsim
updated 11 months ago by 43k • written 14 months ago by ▴ 50
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0
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1.0k
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Comment: Comment: reference for freebayes or samtools mpileup after extracting chromosome from ali
14 months ago by poecile.pal ▴ 50
2
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3
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1.0k
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reference for freebayes or samtools mpileup after extracting chromosome from alignment
samtools SNP alignment freebayes
updated 11 months ago by 43k • written 14 months ago by ▴ 50
0
votes
1
reply
663
views
Why 0/0 genotype refers to SNP and ALT != REF (in vcf file after freebayes)
genotype vcf freebayes SNP vcflib
14 months ago by poecile.pal ▴ 50
0
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0
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663
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Answer: Answer: Why 0/0 genotype refers to SNP and ALT != REF (in vcf file after freebayes)
14 months ago by poecile.pal ▴ 50
1
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0
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1.0k
views
Answer: Answer: reference for freebayes or samtools mpileup after extracting chromosome from ali
14 months ago by poecile.pal ▴ 50
1
vote
0
replies
1.3k
views
Comment: Comment: How not to merge R1 and R2 pair-end files in multiqc report
15 months ago by poecile.pal ▴ 50
2
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4
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1.3k
views
How not to merge R1 and R2 pair-end files in multiqc report
multiqc fastqc
15 months ago by poecile.pal ▴ 50
0
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0
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1.3k
views
Comment: Comment: How not to merge R1 and R2 pair-end files in multiqc report
15 months ago by poecile.pal ▴ 50
1
vote
1
reply
621
views
bwa: reads aligned concordantly exactly 1 time
bowtie2 samtools hisat2 alignment bwa
15 months ago by poecile.pal ▴ 50
1
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0
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621
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Answer: Answer: bwa: reads aligned concordantly exactly 1 time
15 months ago by poecile.pal ▴ 50
0
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0
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948
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Comment: Comment: hisat2-map error: "gzip: stdout: Broken pipe, (ERR): hisat2-align died with sign
17 months ago by poecile.pal ▴ 50
0
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2
replies
948
views
hisat2-map error: "gzip: stdout: Broken pipe, (ERR): hisat2-align died with signal 9 (KILL)"
fastq gzip hisat2
updated 12 months ago by 43k • written 17 months ago by ▴ 50
0
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0
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361
views
calculate meandepths for CDSs after mapping transcriptome reads to the genome
gtf samtools alignment sam
updated 11 months ago by 43k • written 21 months ago by ▴ 50
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0
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2.2k
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Comment: Comment: gtf file without exons
21 months ago by poecile.pal ▴ 50
0
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1
reply
2.2k
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Comment: Comment: gtf file without exons
21 months ago by poecile.pal ▴ 50
0
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1
reply
2.2k
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Comment: Comment: gtf file without exons
21 months ago by poecile.pal ▴ 50
0
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1
reply
2.2k
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Comment: Comment: gtf file without exons
21 months ago by poecile.pal ▴ 50
0
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1
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2.2k
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Comment: Comment: gtf file without exons
21 months ago by poecile.pal ▴ 50
4
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10
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2.2k
views
gtf file without exons
gtf exons annotation augustus hisat2
updated 21 months ago by ★ 1.3k • written 21 months ago by ▴ 50
0
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0
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979
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Comment: Comment: SNP annotation for de novo transcriptome data
2.2 years ago by poecile.pal ▴ 50
0
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0
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24k
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Comment: Comment: How To Extract Reads-Pairs Aligned Concordantly Exactly 1 Time?
2.2 years ago by poecile.pal ▴ 50
0
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1
reply
24k
views
Comment: Comment: How To Extract Reads-Pairs Aligned Concordantly Exactly 1 Time?
2.2 years ago by poecile.pal ▴ 50
0
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0
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352
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GATK workflow for de novo transcriptome assembly of non-model organism
transcriptome GATK SNP samtools non-model-organism
updated 11 months ago by 43k • written 2.2 years ago by ▴ 50
2
votes
2
replies
945
views
Using transdecoder to filter a fasta file with preserving whole transcripts
transcriptome assembly rna-seq fasta transdecoder
updated 2.2 years ago by 21k • written 2.2 years ago by ▴ 50
2
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1
reply
945
views
Answer: Answer: Using transdecoder to filter a fasta file with preserving whole transcripts
2.2 years ago by poecile.pal ▴ 50
0
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1
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1.2k
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Comment: Comment: Extract the longest isoform from transcripts.fasta (rnaSPAdes output)
2.2 years ago by poecile.pal ▴ 50
0
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0
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1.2k
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Comment: Comment: Extract the longest isoform from transcripts.fasta (rnaSPAdes output)
2.2 years ago by poecile.pal ▴ 50
5
votes
5
replies
1.2k
views
Extract the longest isoform from transcripts.fasta (rnaSPAdes output)
transcriptome isoform assembly rna-seq fasta
updated 2.2 years ago by ▴ 720 • written 2.2 years ago by ▴ 50
1
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1
reply
531
views
rnaSPAdes hybrid assembly and YAML file
SPAdes assembly rnaSPAdes rna-seq hybrid
2.2 years ago by poecile.pal ▴ 50
0
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0
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531
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Answer: Answer: rnaSPAdes hybrid assembly and YAML file
2.2 years ago by poecile.pal ▴ 50
0
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0
replies
1.7k
views
Comment: Comment: collapseReplicates in DESeq2 when the number of technical replicates per biosamp
2.5 years ago by poecile.pal ▴ 50
0
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1
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1.7k
views
Comment: Comment: collapseReplicates in DESeq2 when the number of technical replicates per biosamp
2.5 years ago by poecile.pal ▴ 50
3
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4
replies
1.7k
views
collapseReplicates in DESeq2 when the number of technical replicates per biosample is different
collapseReplicates DESeq2 RNASeq expression DEG
2.5 years ago by poecile.pal ▴ 50
0
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0
replies
514
views
Tools for the reconstruction of demographic history from genome sequences FOR POLYPLOIDS
MSMC SMC demographics genome polyploids
2.7 years ago by poecile.pal ▴ 50
0
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0
replies
486
views
Download intergenic spacers between specific genes for all findings in genbank
seqinr R genbank search phylogeny
2.7 years ago by poecile.pal ▴ 50
0
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0
replies
1.4k
views
Comment: Comment: DRIMSeq with more than 2 categories in the group
2.7 years ago by poecile.pal ▴ 50
0
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0
replies
1.4k
views
Comment: Comment: DRIMSeq with more than 2 categories in the group
2.7 years ago by poecile.pal ▴ 50
1
vote
5
replies
3.4k
views
Problems with installing adegenet
R error software adegenet gene
3.0 years ago by poecile.pal ▴ 50
0
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0
replies
3.4k
views
Answer: Answer: Problems with installing adegenet
3.0 years ago by poecile.pal ▴ 50
0
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0
replies
3.4k
views
Comment: Comment: Problems with installing adegenet
3.0 years ago by poecile.pal ▴ 50
0
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0
replies
3.4k
views
Comment: Comment: Problems with installing adegenet
3.0 years ago by poecile.pal ▴ 50
0
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0
replies
1.4k
views
Comment: C: Trying to get sequence using sequinr generates error "Error in readLines(socket,
3.2 years ago by poecile.pal ▴ 50
1
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2
replies
1.4k
views
Trying to get sequence using sequinr generates error "Error in readLines(socket, n = nelem, ok = FALSE)"
gene software error sequence R genome
3.3 years ago by poecile.pal ▴ 50
0
votes
4
replies
1.4k
views
DRIMSeq with more than 2 categories in the group
RNA-Seq R software error
2.7 years ago by poecile.pal ▴ 50
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