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2
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3
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2.7k
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Loading a genome in BSgenome
BSgenome Bioconductor genome assembly
updated 3.7 years ago by ▴ 70 • written 7.7 years ago by ▴ 60
0
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1
reply
1.1k
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Assembly size decreased after using SSPACE for scaffolding
sspace assembly size contigs scaffolding
updated 5.4 years ago by 20 • written 5.4 years ago by ▴ 60
1
vote
3
replies
6.4k
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Reference based assembly
Reference Assembly
updated 6.6 years ago by ★ 1.7k • written 6.7 years ago by ▴ 60
0
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0
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1.8k
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Comment: C: Should I replace heterozygous variants to make a consensus
6.7 years ago by deepti1rao ▴ 60
0
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0
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1.8k
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Comment: C: Should I replace heterozygous variants to make a consensus
6.7 years ago by deepti1rao ▴ 60
0
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0
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3.0k
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Comment: C: IUAPC codes in consensus sequence ? samtools mpileup / bcftools call / bcftools
6.7 years ago by deepti1rao ▴ 60
0
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6
replies
1.8k
views
Should I replace heterozygous variants to make a consensus
Variant Consensus Genome assembly Heterozygous
6.7 years ago by deepti1rao ▴ 60
0
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1
reply
1.8k
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Comment: C: Should I replace heterozygous variants to make a consensus
6.7 years ago by deepti1rao ▴ 60
5
votes
9
replies
6.5k
views
7 follow
Need help with R script to edit x-axis of snp density plot
snps density chromosome R
updated 6.7 years ago by ★ 3.4k • written 6.9 years ago by ▴ 60
0
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1
reply
1.3k
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vcf v4.2 consequences of missense snps
vcf plant missense snps SIFT
6.9 years ago by deepti1rao ▴ 60
0
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2
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6.5k
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Comment: C: Need help with R script to edit x-axis of snp density plot
6.9 years ago by deepti1rao ▴ 60
0
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0
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4.4k
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Comment: C: Known SNPs for rice for Base recalibration using GATK
6.9 years ago by deepti1rao ▴ 60
1
vote
2
replies
2.1k
views
SOAPdenovo statistics output for Nx
Nx N50 soapdenovo Assembly L50
updated 7.0 years ago by ★ 1.1k • written 7.1 years ago by ▴ 60
0
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1
reply
5.9k
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Comment: C: What Are You Using For A Reference Assembler?
7.0 years ago by deepti1rao ▴ 60
0
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1
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6.8k
views
Comment: C: Is there a way to reformat vcf 4.2 down to 4.1?
7.0 years ago by deepti1rao ▴ 60
2
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4
replies
1.4k
views
Finding genes/proteins from variant files
Annotation Variants
7.0 years ago by deepti1rao ▴ 60
0
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0
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1.5k
views
Error value for safely scaffolding contigs with SSPACE
SSPACE error insert size read pairs Assembly
7.1 years ago by deepti1rao ▴ 60
1
vote
1
reply
999
views
Using the same read library to scaffold read tracked contigs
scaffolding reads velvet
updated 7.1 years ago by ★ 1.1k • written 7.1 years ago by ▴ 60
1
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5
replies
3.0k
views
SSPACE for scaffolding
sspace scaffolding contigs insert size bbmap
updated 7.1 years ago by 45k • written 7.1 years ago by ▴ 60
0
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0
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3.0k
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Comment: C: SSPACE for scaffolding
7.1 years ago by deepti1rao ▴ 60
0
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2
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3.0k
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Comment: A: SSPACE for scaffolding
7.1 years ago by deepti1rao ▴ 60
2
votes
6
replies
2.4k
views
Continuous alignment of contigs with reference using blast /blat
Blat Contigs Alignment
updated 7.1 years ago by 35k • written 7.1 years ago by ▴ 60
0
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0
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2.4k
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Comment: C: Continuous alignment of contigs with reference using blast /blat
7.1 years ago by deepti1rao ▴ 60
0
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1
reply
2.4k
views
Comment: C: Continuous alignment of contigs with reference using blast /blat
7.1 years ago by deepti1rao ▴ 60
0
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0
replies
4.8k
views
Answer: A: Problems For Mapping Contigs Onto Reference
7.1 years ago by deepti1rao ▴ 60
0
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0
replies
2.9k
views
Comment: C: How to show whole blast contig
7.1 years ago by deepti1rao ▴ 60
0
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1
reply
2.9k
views
Blast subject coordinates
Blast Subject Coordinates
updated 7.1 years ago by 45k • written 7.1 years ago by ▴ 60
0
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0
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11k
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Comment: C: Single Gene Orthologs
7.2 years ago by deepti1rao ▴ 60
7
votes
7
replies
5.3k
views
Is indel realigning necessary for INDEL discovery?
indel GATK indelrealigner
updated 7.2 years ago by 14k • written 7.2 years ago by ▴ 60
0
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0
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5.3k
views
Comment: C: Is indel realigning necessary for INDEL discovery?
7.2 years ago by deepti1rao ▴ 60
2
votes
8
replies
3.2k
views
6 follow
Judging best assembly
velvet Assembly kmer coverage cut off
updated 7.2 years ago by ★ 1.5k • written 7.2 years ago by ▴ 60
0
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0
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3.2k
views
Comment: C: Judging best assembly
7.2 years ago by deepti1rao ▴ 60
0
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0
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3.2k
views
Comment: C: Judging best assembly
7.2 years ago by deepti1rao ▴ 60
0
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0
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2.0k
views
Comment: C: Total genome size Velvet
7.3 years ago by deepti1rao ▴ 60
0
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0
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3.6k
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Comment: C: kmer distribution tiny peak at low coverage
7.3 years ago by deepti1rao ▴ 60
0
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1
reply
3.6k
views
Comment: C: kmer distribution tiny peak at low coverage
7.3 years ago by deepti1rao ▴ 60
0
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0
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3.6k
views
Comment: C: kmer distribution tiny peak at low coverage
7.3 years ago by deepti1rao ▴ 60
0
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2
replies
1.5k
views
kmer distribution curve shifts to right of poisson distribution
kmer poisson distribution
updated 7.3 years ago by 35k • written 7.3 years ago by ▴ 60
1
vote
7
replies
3.6k
views
kmer distribution tiny peak at low coverage
kmer distribution Assembly
updated 7.3 years ago by 35k • written 7.3 years ago by ▴ 60
0
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0
replies
23k
views
Comment: C: How To Choose The K Value Of Kmer In Soapdenovo?
7.3 years ago by deepti1rao ▴ 60
0
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0
replies
1.5k
views
kmergenie input forward and reverse reads
kmergenie paired end kmer
updated 7.3 years ago by 20 • written 7.4 years ago by ▴ 60
0
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1
reply
1.1k
views
Annotation of rice contigs
Annotation
7.5 years ago by deepti1rao ▴ 60
0
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0
replies
22k
views
Comment: C: Trimming fastq with quality
7.5 years ago by deepti1rao ▴ 60
0
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0
replies
2.2k
views
Comment: C: bbduk for pre-processing
7.6 years ago by deepti1rao ▴ 60
0
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0
replies
2.8k
views
Comment: C: Insert size provided by bbmerge
7.6 years ago by deepti1rao ▴ 60
0
votes
3
replies
2.2k
views
bbduk for pre-processing
bbduk bbmap reads pre-processing
updated 7.6 years ago by 152k • written 7.6 years ago by ▴ 60
0
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5
replies
2.8k
views
Insert size provided by bbmerge
insert bbmerge
updated 7.6 years ago by 152k • written 7.6 years ago by ▴ 60
0
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1
reply
2.8k
views
Comment: C: Insert size provided by bbmerge
7.6 years ago by deepti1rao ▴ 60
0
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0
replies
2.2k
views
Comment: A: bbduk for pre-processing
7.6 years ago by deepti1rao ▴ 60
4
votes
8
replies
3.7k
views
Trimming reads with prinseq
prinseq reads preprocessing qual trim
7.6 years ago by deepti1rao ▴ 60
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