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Fast way to use Samtools to sort a BAM file by queryname similar to `picard SortSam SORT_ORDER=queryname`?
samtools bam picard
10 months ago by kalavattam ▴ 380
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Comment: Comment: How does salmon deal with decoy?
3.3 years ago by kalavattam ▴ 380
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1.9k
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Comment: Comment: How to remove Mate mapped to a different chromosome
3.5 years ago by kalavattam ▴ 380
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2.9k
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Comment: Comment: Duplicate reads remain in bam after picard MarkDuplicates --REMOVE_DUPLICATES tr
3.6 years ago by kalavattam ▴ 380
0
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1
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2.9k
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Comment: Comment: Duplicate reads remain in bam after picard MarkDuplicates --REMOVE_DUPLICATES tr
3.6 years ago by kalavattam ▴ 380
1
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4
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2.9k
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Duplicate reads remain in bam after picard MarkDuplicates --REMOVE_DUPLICATES true
deduplication qname fastq Picard bam
3.6 years ago by kalavattam ▴ 380
0
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0
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791
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Align sample to two different assemblies, then classify pairs that differ significantly in alignment score
Bowtie2 classification mismatch alignment gaps
4.0 years ago by kalavattam ▴ 380
2
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1
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2.4k
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Answer: Answer: How to study transposable elements expression relationship with its closest gene
4.0 years ago by kalavattam ▴ 380
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0
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2.5k
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Answer: Answer: How to analysis 4c seq 3c seq data
4.4 years ago by kalavattam ▴ 380
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1.6k
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Answer: Answer: recent Hi-C databases
4.4 years ago by kalavattam ▴ 380
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1.4k
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Comment: Comment: Bioinformatics definition of TAD boundary
4.4 years ago by kalavattam ▴ 380
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Comment: Comment: ICE normalization using JuicerTools
4.4 years ago by kalavattam ▴ 380
3
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961
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Answer: Answer: HI-C analysis in the cloud environment
4.5 years ago by kalavattam ▴ 380
0
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1
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6.7k
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Answer: Answer: ICE normalization using JuicerTools
4.5 years ago by kalavattam ▴ 380
0
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0
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824
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Plot only the genome-wide trans contacts in a Hi-C matrix (no cis contacts)
juicer Hi-C inter-chromosomal cooler trans
4.5 years ago by kalavattam ▴ 380
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0
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23k
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Comment: C: How to get all genes for a specific list of regions in R preferably using Biomar
4.9 years ago by kalavattam ▴ 380
4
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3
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14k
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Answer: C: MACS2 --SPMR and --nolambda usage for version 2.1.2
6.4 years ago by kalavattam ▴ 380
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