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GFF/GTF: how to translate CDS genomic coordinates to protein coordinates
GTF GFF3
updated 2.8 years ago by 8.5k • written 2.8 years ago by ★ 1.2k
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1
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3.4k
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Comment: Comment: Optical duplicates?
2.9 years ago by abascalfederico ★ 1.2k
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3.4k
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Comment: Comment: Optical duplicates?
2.9 years ago by abascalfederico ★ 1.2k
7
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6
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3.4k
views
Optical duplicates?
duplicate optical
updated 2.1 years ago by ▴ 60 • written 2.9 years ago by ★ 1.2k
3
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3
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5.4k
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Program to calculate and add the NM tag to a bam file
bam NM
updated 3.3 years ago by 20 • written 6.8 years ago by ★ 1.2k
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1
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1.6k
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Answer: A: Extract samples with alternative genotype from a multi-sample VCF
3.4 years ago by abascalfederico ★ 1.2k
3
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0
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59k
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Answer: A: What Are The Most Common Stupid Mistakes In Bioinformatics?
updated 3.9 years ago by 43k • written 8.5 years ago by ★ 1.2k
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1.6k
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Answer: A: Apt way to perform multi pairwise alignments ?
updated 4.3 years ago by 43k • written 8.2 years ago by ★ 1.2k
3
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Answer: A: 23andMe SNP data does not correlate with UCSC. What am I doing wrong?
updated 4.3 years ago by 43k • written 8.2 years ago by ★ 1.2k
6
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0
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13k
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Answer: A: samtools view - F 4 removes sam header and truncates file??
updated 4.3 years ago by 43k • written 8.2 years ago by ★ 1.2k
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0
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5.5k
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Comment: C: List of CNV (copy number variation) regions in the human genome
updated 4.3 years ago by 43k • written 8.2 years ago by ★ 1.2k
2
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0
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4.3k
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Answer: A: How to download intronic positions from Ensembl
updated 4.3 years ago by 43k • written 8.2 years ago by ★ 1.2k
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0
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2.3k
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Comment: C: Ancestral Allele for the Genus Gallus
updated 4.3 years ago by 43k • written 8.2 years ago by ★ 1.2k
3
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1
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4.1k
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Answer: A: Recode VCF file according to ancestral alleles (AA)
updated 4.3 years ago by 43k • written 8.3 years ago by ★ 1.2k
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Answer: A: Repeat regions were contained in cds file (extracted from evm.out.gff3 by using
updated 4.3 years ago by 43k • written 8.3 years ago by ★ 1.2k
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1
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11k
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Comment: C: How to properly merge multiple runs into one bam file ?
updated 4.3 years ago by 43k • written 8.2 years ago by ★ 1.2k
3
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1
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11k
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Answer: A: How to properly merge multiple runs into one bam file ?
updated 4.3 years ago by 43k • written 8.3 years ago by ★ 1.2k
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0
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3.2k
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Answer: A: How to show my chosen SNPs on the UCSC genome browser?
updated 4.4 years ago by 43k • written 8.3 years ago by ★ 1.2k
1
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0
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2.0k
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Answer: A: Gene to coordinates
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
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1
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5.3k
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Answer: A: Bioedit: remove all gaps in selected region
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
2
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0
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9.3k
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Answer: A: BWA alignment using paired end reads from different lanes
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
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0
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2.1k
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Comment: C: SNP data analysis - advices for statistics
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
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0
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3.1k
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Answer: A: finding reads from fastq files corresponds to particular transcript from fasta f
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
1
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1
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10k
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Answer: A: What are the terms for reference allele and alternate alleles in cancer?
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
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1
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1.8k
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Answer: A: Gene names from NCBI is not able to use for overlapping in species comparison
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
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0
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4.3k
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Answer: A: How to find transposable element genes in ensembl annotation
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
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1
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7.1k
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Comment: C: How to interpret LRT < 0 in codeml branch-model based test?
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
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1
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7.1k
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Comment: C: How to interpret LRT < 0 in codeml branch-model based test?
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
4
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1
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7.1k
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Answer: A: How to interpret LRT < 0 in codeml branch-model based test?
updated 4.4 years ago by 43k • written 8.4 years ago by ★ 1.2k
1
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0
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1.5k
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Answer: A: Retrieve taxon age from Ensembl
updated 4.4 years ago by 43k • written 8.7 years ago by ★ 1.2k
1
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2
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1.5k
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Tool to segment genome according to SNP density?
hmm segmentation snp density
updated 4.4 years ago by 20 • written 6.5 years ago by ★ 1.2k
0
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0
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3.7k
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Comment: C: Duplicated read names in Fastq file
updated 4.5 years ago by 43k • written 8.8 years ago by ★ 1.2k
4
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1
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7.5k
views
Answer: A: distance between two genes
updated 4.5 years ago by 43k • written 8.8 years ago by ★ 1.2k
2
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1
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1.9k
views
Answer: A: Phylogeny using UTR sequences: any insights?
updated 4.5 years ago by 43k • written 8.8 years ago by ★ 1.2k
0
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0
replies
754
views
VCF human-chimp divergence?
vcf
4.6 years ago by abascalfederico ★ 1.2k
2
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4
replies
3.7k
views
Duplicated read names in Fastq file
next-gen-sequencing
updated 16 months ago by 43k • written 8.8 years ago by ★ 1.2k
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0
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4.6k
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Comment: C: Blastn high mem usage, very low CPU usage
updated 5.6 years ago by 43k • written 8.2 years ago by ★ 1.2k
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1
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1.6k
views
Comment: C: strand bias, gram negative bacteria
updated 5.6 years ago by 43k • written 8.2 years ago by ★ 1.2k
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0
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3.9k
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Comment: C: How to get predicted protein sequence from a genome?
updated 5.6 years ago by 43k • written 8.2 years ago by ★ 1.2k
1
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1
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3.9k
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Comment: C: How to get predicted protein sequence from a genome?
updated 5.6 years ago by 43k • written 8.2 years ago by ★ 1.2k
1
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1
reply
4.5k
views
Comment: C: Better strategies for repeat masking?
updated 5.6 years ago by 43k • written 8.2 years ago by ★ 1.2k
0
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1
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1.8k
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Answer: A: Alignment & Conserved Element
updated 5.6 years ago by 43k • written 8.2 years ago by ★ 1.2k
1
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0
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3.0k
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Answer: A: Convert ensembl gene ID
updated 5.6 years ago by 43k • written 8.1 years ago by ★ 1.2k
0
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0
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2.3k
views
Comment: C: How to get a list of reads supporting a variant in R?
6.2 years ago by abascalfederico ★ 1.2k
0
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1
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2.3k
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Comment: C: How to get a list of reads supporting a variant in R?
6.2 years ago by abascalfederico ★ 1.2k
0
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1
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2.3k
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Comment: C: How to get a list of reads supporting a variant in R?
6.2 years ago by abascalfederico ★ 1.2k
3
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7
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2.3k
views
How to get a list of reads supporting a variant in R?
R bam
updated 6.2 years ago by 104k • written 6.2 years ago by ★ 1.2k
0
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0
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5.4k
views
Comment: C: Program to calculate and add the NM tag to a bam file
6.8 years ago by abascalfederico ★ 1.2k
0
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0
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1.9k
views
Comment: C: Why ExAC used bwa aln instead of mem?
6.8 years ago by abascalfederico ★ 1.2k
4
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2
replies
1.9k
views
Why ExAC used bwa aln instead of mem?
exac bwa
6.8 years ago by abascalfederico ★ 1.2k
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