Files in colbyford/cytosieve
In silico cytometric filtering of bulk sequencing data using transcriptional profiles.
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/cytosieve.R
R/filter_reads.R
R/filter_reference.R
R/gff.R
README.md
cytosieve.Rproj
cytosieve_0.1.0.tar.gz
cytosieve_0.2.0.tar.gz
img/cytosieve_hex.png
img/figures.pptx
img/process.png
man/cytosieve-package.Rd
man/filter_reads.Rd
man/filter_reference.Rd
man/hello.Rd
man/read_gff.Rd
sample_data/PVP01_Genes.fasta
sample_data/PVP01_Genes_Schizont_gt1.fasta
sample_data/Pvivax_sample_r1_1000reads.fastq
sample_data/Pvivax_sample_r1_1000reads_filtered.fastq
sample_data/Pvivax_sample_r1_100reads.fastq
sample_data/Pvivax_sample_r2_1000reads.fastq
sample_data/Pvivax_sample_r2_1000reads_filtered.fastq
sample_data/Pvivax_sample_r2_100reads.fastq
sample_data/Pvivax_schizont_filter_all29.fasta
sample_data/profile_41467_2019_8312_MOESM7_ESM.txt
test/example_output.gff
test/filter_fasta.R
test/schizont_test/read_filtering/concatenated/feature_counts.csv
test/schizont_test/read_filtering/concatenated/feature_counts.txt
test/schizont_test/read_filtering/concatenated/filter_stats.csv
test/schizont_test/read_filtering/concatenated/sample_summary.txt
test/schizont_test/read_filtering/individual/sample_summary.txt
test/schizont_test/read_filtering/individual/schizont_test.xlsx
test/schizont_test/read_filtering/schizont_filter_all29_concatenated.fasta
test/schizont_test/reference_filtering/PlasmoDB-48_PvivaxP01.gff
test/schizont_test/reference_filtering/PlasmoDB-48_PvivaxP01_filtered.gff
test/schizont_test/reference_filtering/Pvivax_ASM241v2.fasta
test/schizont_test/reference_filtering/chr10_NC_009915.1.fasta
test/schizont_test/reference_filtering/chr11_NC_009916.1.fasta
test/schizont_test/reference_filtering/chr12_NC_009917.1.fasta
test/schizont_test/reference_filtering/chr13_NC_009918.1.fasta
test/schizont_test/reference_filtering/chr14_NC_009919.1.fasta
test/schizont_test/reference_filtering/chr1_NC_009906.1.fasta
test/schizont_test/reference_filtering/chr2_NC_009907.1.fasta
test/schizont_test/reference_filtering/chr3_NC_009908.2.fasta
test/schizont_test/reference_filtering/chr4_NC_009909.1.fasta
test/schizont_test/reference_filtering/chr5_NC_009910.1.fasta
test/schizont_test/reference_filtering/chr6_NC_009911.1.fasta
test/schizont_test/reference_filtering/chr7_NC_009912.1.fasta
test/schizont_test/reference_filtering/chr8_NC_009913.1.fasta
test/schizont_test/reference_filtering/chr9_NC_009914.1.fasta
test/schizont_test/reference_filtering/mt_NC_007243.1.fasta
test/test_read_filtering.R
test/test_reference_filtering.R
