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2
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3
replies
2.4k
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Loading a genome in BSgenome
BSgenome Bioconductor genome assembly
updated 3.2 years ago by ▴ 70 • written 7.1 years ago by ▴ 50
0
votes
1
reply
992
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Assembly size decreased after using SSPACE for scaffolding
sspace assembly size contigs scaffolding
updated 4.8 years ago by 20 • written 4.8 years ago by ▴ 50
1
vote
3
replies
5.6k
views
Reference based assembly
Reference Assembly
updated 6.0 years ago by ★ 1.7k • written 6.1 years ago by ▴ 50
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0
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1.6k
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Comment: C: Should I replace heterozygous variants to make a consensus
6.1 years ago by deepti1rao ▴ 50
0
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0
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1.6k
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Comment: C: Should I replace heterozygous variants to make a consensus
6.1 years ago by deepti1rao ▴ 50
0
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0
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2.7k
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Comment: C: IUAPC codes in consensus sequence ? samtools mpileup / bcftools call / bcftools
6.1 years ago by deepti1rao ▴ 50
0
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6
replies
1.6k
views
Should I replace heterozygous variants to make a consensus
Variant Consensus Genome assembly Heterozygous
6.1 years ago by deepti1rao ▴ 50
0
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1
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1.6k
views
Comment: C: Should I replace heterozygous variants to make a consensus
6.1 years ago by deepti1rao ▴ 50
5
votes
9
replies
6.0k
views
7 follow
Need help with R script to edit x-axis of snp density plot
snps density chromosome R
updated 6.1 years ago by ★ 3.4k • written 6.3 years ago by ▴ 50
0
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1
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1.2k
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vcf v4.2 consequences of missense snps
vcf plant missense snps SIFT
6.3 years ago by deepti1rao ▴ 50
0
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2
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6.0k
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Comment: C: Need help with R script to edit x-axis of snp density plot
6.3 years ago by deepti1rao ▴ 50
0
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0
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4.1k
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Comment: C: Known SNPs for rice for Base recalibration using GATK
6.4 years ago by deepti1rao ▴ 50
1
vote
2
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2.0k
views
SOAPdenovo statistics output for Nx
Nx N50 soapdenovo Assembly L50
updated 6.4 years ago by ★ 1.1k • written 6.6 years ago by ▴ 50
0
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1
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5.2k
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Comment: C: What Are You Using For A Reference Assembler?
6.4 years ago by deepti1rao ▴ 50
0
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1
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6.6k
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Comment: C: Is there a way to reformat vcf 4.2 down to 4.1?
6.4 years ago by deepti1rao ▴ 50
2
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4
replies
1.3k
views
Finding genes/proteins from variant files
Annotation Variants
6.5 years ago by deepti1rao ▴ 50
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
6.5 years ago by deepti1rao ▴ 50
1
vote
1
reply
878
views
Using the same read library to scaffold read tracked contigs
scaffolding reads velvet
updated 6.5 years ago by ★ 1.1k • written 6.5 years ago by ▴ 50
1
vote
5
replies
2.7k
views
SSPACE for scaffolding
sspace scaffolding contigs insert size bbmap
updated 6.5 years ago by 44k • written 6.5 years ago by ▴ 50
0
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0
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2.7k
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Comment: C: SSPACE for scaffolding
6.5 years ago by deepti1rao ▴ 50
0
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2
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2.7k
views
Comment: A: SSPACE for scaffolding
6.5 years ago by deepti1rao ▴ 50
2
votes
6
replies
2.1k
views
Continuous alignment of contigs with reference using blast /blat
Blat Contigs Alignment
updated 6.6 years ago by 35k • written 6.6 years ago by ▴ 50
0
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0
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2.1k
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Comment: C: Continuous alignment of contigs with reference using blast /blat
6.6 years ago by deepti1rao ▴ 50
0
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1
reply
2.1k
views
Comment: C: Continuous alignment of contigs with reference using blast /blat
6.6 years ago by deepti1rao ▴ 50
0
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0
replies
4.4k
views
Answer: A: Problems For Mapping Contigs Onto Reference
6.6 years ago by deepti1rao ▴ 50
0
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0
replies
2.7k
views
Comment: C: How to show whole blast contig
6.6 years ago by deepti1rao ▴ 50
0
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1
reply
2.7k
views
Blast subject coordinates
Blast Subject Coordinates
updated 6.6 years ago by 44k • written 6.6 years ago by ▴ 50
0
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0
replies
9.8k
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Comment: C: Single Gene Orthologs
6.6 years ago by deepti1rao ▴ 50
7
votes
7
replies
4.8k
views
Is indel realigning necessary for INDEL discovery?
indel GATK indelrealigner
updated 6.6 years ago by 14k • written 6.6 years ago by ▴ 50
0
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0
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4.8k
views
Comment: C: Is indel realigning necessary for INDEL discovery?
6.6 years ago by deepti1rao ▴ 50
2
votes
8
replies
2.8k
views
6 follow
Judging best assembly
velvet Assembly kmer coverage cut off
updated 6.6 years ago by ★ 1.5k • written 6.6 years ago by ▴ 50
0
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0
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2.8k
views
Comment: C: Judging best assembly
6.6 years ago by deepti1rao ▴ 50
0
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0
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2.8k
views
Comment: C: Judging best assembly
6.6 years ago by deepti1rao ▴ 50
0
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0
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1.9k
views
Comment: C: Total genome size Velvet
6.7 years ago by deepti1rao ▴ 50
0
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0
replies
3.4k
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Comment: C: kmer distribution tiny peak at low coverage
6.7 years ago by deepti1rao ▴ 50
0
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1
reply
3.4k
views
Comment: C: kmer distribution tiny peak at low coverage
6.7 years ago by deepti1rao ▴ 50
0
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0
replies
3.4k
views
Comment: C: kmer distribution tiny peak at low coverage
6.7 years ago by deepti1rao ▴ 50
0
votes
2
replies
1.4k
views
kmer distribution curve shifts to right of poisson distribution
kmer poisson distribution
updated 6.7 years ago by 35k • written 6.7 years ago by ▴ 50
1
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7
replies
3.4k
views
kmer distribution tiny peak at low coverage
kmer distribution Assembly
updated 6.7 years ago by 35k • written 6.7 years ago by ▴ 50
0
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0
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22k
views
Comment: C: How To Choose The K Value Of Kmer In Soapdenovo?
6.7 years ago by deepti1rao ▴ 50
0
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0
replies
1.3k
views
kmergenie input forward and reverse reads
kmergenie paired end kmer
updated 6.8 years ago by 20 • written 6.9 years ago by ▴ 50
0
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1
reply
1.0k
views
Annotation of rice contigs
Annotation
6.9 years ago by deepti1rao ▴ 50
0
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0
replies
21k
views
Comment: C: Trimming fastq with quality
6.9 years ago by deepti1rao ▴ 50
0
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0
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2.0k
views
Comment: C: bbduk for pre-processing
7.0 years ago by deepti1rao ▴ 50
0
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0
replies
2.6k
views
Comment: C: Insert size provided by bbmerge
7.0 years ago by deepti1rao ▴ 50
0
votes
3
replies
2.0k
views
bbduk for pre-processing
bbduk bbmap reads pre-processing
updated 7.0 years ago by 147k • written 7.0 years ago by ▴ 50
0
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5
replies
2.6k
views
Insert size provided by bbmerge
insert bbmerge
updated 7.0 years ago by 147k • written 7.0 years ago by ▴ 50
0
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1
reply
2.6k
views
Comment: C: Insert size provided by bbmerge
7.0 years ago by deepti1rao ▴ 50
0
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0
replies
2.0k
views
Comment: A: bbduk for pre-processing
7.0 years ago by deepti1rao ▴ 50
0
votes
2
replies
3.5k
views
Comment: A: Trimming reads with prinseq
7.0 years ago by deepti1rao ▴ 50
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