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Filtering Read Quality - Cant remove all reads that have a single base below a threshold
filter fastx quality-score sequencing written 10 weeks ago by tbb21 • 10 • updated 2 days ago by Biostar ♦♦ 20
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filter gene expression matrix
filter gene expression written 10 days ago by Sam • 100 • updated 10 days ago by finswimmer ♦ 9.8k
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Sequence identity between sequences with different lengths
sequence filter mummer alignment identity written 11 days ago by ricardoguerreiro2121 • 20 • updated 11 days ago by Bastien Hervé ♦ 3.3k
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7 follow
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Filtering Paired End Reads
filter fastq fastx written 8.6 years ago by brentp ♦ 22k • updated 21 days ago by Biostar ♦♦ 20
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1000Genome SV integrated map's power for SV filter
filter 1000 genome project structural variation written 2.8 years ago by michealsmith • 740 • updated 10 weeks ago by LGMgeo • 90
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bcftools filtering INFO column issues (empty output)
vcf filter bcftools missing info written 11 weeks ago by Molly_K • 40
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Remove a list of positions form a VCF file
vcf filter snp written 2.3 years ago by shinken123 • 80 • updated 11 weeks ago by zx8754 ♦ 6.5k
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Using repeat region filter post QC
exome filter ngs repeats written 3 months ago by zx8754 ♦ 6.5k • updated 3 months ago by Pierre Lindenbaum ♦ 116k
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Simultaneous vs sequential marker filters
filter order snp written 3 months ago by zvezdoma • 0
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basic command in bash
filter grep rna-seq written 3 months ago by luzglongoria • 20
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Filtering SAM file based on column numbers
filter alignment sam written 3 months ago by elena.syp • 0 • updated 3 months ago by Pierre Lindenbaum ♦ 116k
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A Grep For Gene Ontology ?
gene filter written 8.9 years ago by Pierre Lindenbaum ♦ 116k • updated 5 months ago by RamRS ♦ 20k
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Using one bam file with huge coverage, How to generate several bam files with different coverage
filter snps caller bam written 5 months ago by tarek.mohamed • 230 • updated 5 months ago by WouterDeCoster ♦ 36k
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Error while trying to filter a .vcf.gz file with a bed.gz file
filter error bed file bed written 5 months ago by ricfoz • 20 • updated 5 months ago by RamRS ♦ 20k
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1
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GEO search filtering
geo rnaseq filter written 6 months ago by cilgaiscan • 40 • updated 6 months ago by btsui • 280
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Filter Alt Reads from BAM at List of Known Het Sites
reads filter bam written 6 months ago by alongalor • 0
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1
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1
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(Sanity check) Too many SNPs?
filter next-gen variant written 15 months ago by rightmirem • 50 • updated 7 months ago by Biostar ♦♦ 20
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1
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Extracting Cumulative (Rare) Allele Frequencies for a Subset of Variants From a VCF
vcf filter rare variant tests enrichment written 7 months ago by maegsul • 130 • updated 7 months ago by Pierre Lindenbaum ♦ 116k
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GOexpress analysis, removing genes with a score of 0?
goexpress filter expressio set rna-seq remove written 7 months ago by draper • 0
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5 follow
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Filter sam/bam files
filter bam samtools sam gbs written 7 months ago by ramesh.8v • 200 • updated 7 months ago by swbarnes2 ♦ 4.8k
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Filtering reads on the basis of percentage of ambiguous(N's) characters
filter fastq rna-seq written 8 months ago by Varun Gupta • 1.1k • updated 8 months ago by Pierre Lindenbaum ♦ 116k
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Extracting genotypes and filtering from a VCF file containing multiple exomes of families
vcf filter exome dna-seq genotype written 8 months ago by gradstudentNew • 10 • updated 8 months ago by Pierre Lindenbaum ♦ 116k
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260
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Filtering GO terms by neuromuscular processes
filter interactions disease go protein written 9 months ago by Swimming bird • 10 • updated 8 months ago by jean.elbers • 520
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1
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204
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1
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Using the ranking value to filter
discosnp++ discosnp rna-seq variantcalling filter written 10 months ago by vguerracanedo • 10 • updated 10 months ago by pierre.peterlongo • 830
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How to filter VCF where at least x% of the individuals have DP>=10 and GQ>=20
vcf filter gatk written 12 months ago by hellbio • 360 • updated 12 months ago by Pierre Lindenbaum ♦ 116k
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remove lowly expressed genes by selecting genes that had FPKM > 0
filter rna-seq written 12 months ago by DataFanatic • 120
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Use Blast for the three species of Leishmania in order to take only the common sequences in fasta file
fasta filter blast leismania sequences written 15 months ago by dzisis1986 • 20 • updated 13 months ago by Biostar ♦♦ 20
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Filter SNP's for no more than 3 mismatches per 10 bp window
filter mismatch snp gatk written 13 months ago by shubhra.bhattacharya • 120 • updated 13 months ago by Pierre Lindenbaum ♦ 116k
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Opinion on Quality basecall threshold to use
vcf filter quality qual written 14 months ago by ricfoz • 20
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filter multisample vcf based on per-sample average read depth
vcf filter variant call read depth written 14 months ago by agathejouet • 0 • updated 14 months ago by Pierre Lindenbaum ♦ 116k
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