jtlovell/GENESPACE
Synteny- and orthology-constrained comparative genomics

Package index
Search the jtlovell/GENESPACE package
Functions
229
Source code
26
Man pages
25
Home
/
GitHub
/
jtlovell/GENESPACE: Synteny- and orthology-constrained comparative genomics
/
API

API for jtlovell/GENESPACE
Synteny- and orthology-constrained comparative genomics

Global functions
.onAttach Man page Source code
add_alpha Man page Source code
add_array2bed Man page Source code
add_arrayReps2bed Man page Source code
add_rle Man page Source code
align_charLeft Man page Source code
align_charRight Man page Source code
annotate_bed Man page Source code
annotate_blast Man page Source code
are_colors Man page Source code
calc_blkCoords Man page Source code
calc_curvePolygon Man page Source code
calc_pafBlkCoords Man page Source code
check_MCScanXhInstall Man page Source code
check_annotFiles Man page Source code
check_character Man page Source code
check_filePathParam Man page Source code
check_integer Man page Source code
check_logical Man page Source code
check_minimap2install Man page Source code
check_numeric Man page Source code
check_onlyDNA Man page Source code
classify_genome Man page Source code
clean_windows Man page Source code
clus_igraph Man page Source code
convert_input2v1 Man page Source code
convert_si2gr Man page Source code
copy_of2results Man page Source code
download_exampleData Man page Source code
find_contigsGapsTelos Man page Source code
find_fewKmers Man page Source code
find_gaps Man page Source code
find_kmers Man page
find_manyKmers Man page Source code
find_nnHit Man page Source code
find_ofFiles Man page Source code
find_runsOfNs Man page Source code
find_selfSyn Man page Source code
find_telomeres Man page Source code
flag_hitsInBlk Man page Source code
flag_hitsInRadius Man page Source code
flag_pafSynteny Man page Source code
get_bedInBlk Man page Source code
get_diamondVersion Man page Source code
get_gappedRanges Man page Source code
get_nAA Man page Source code
get_nSeqs Man page Source code
get_orderedTips Man page Source code
get_orthofinderVersion Man page Source code
ggdotplot Man page Source code
gghits Man page Source code
gs_colors Man page Source code
gviz_utils Man page
init_genespace Man page Source code
integrate_synteny Man page
interp_approx Man page Source code
interp_synPos Man page Source code
join_ranges Man page Source code
match_fasta2gff Man page Source code
minimap_4synteny Man page Source code
nophase_blks Man page Source code
ofInBlk_engine Man page Source code
parse_annotations Man page Source code
parse_faHeader Man page Source code
parse_hogs Man page Source code
parse_ncbi Man page Source code
parse_ogs Man page Source code
parse_orthologues Man page Source code
parse_phytozome Man page Source code
phase_blks Man page Source code
plot_2genomes Man page Source code
plot_contigs Man page Source code
plot_hits Man page Source code
plot_riparian Man page Source code
pull_pairwise Man page Source code
pull_seqInfo Man page Source code
query_cnv Man page Source code
query_genespace Man page
query_hits Man page Source code
query_pangenes Man page Source code
read_aaFasta Man page Source code
read_allBlast Man page Source code
read_bed Man page Source code
read_combBed Man page Source code
read_intSynPos Man page Source code
read_orthofinderSequenceIDs Man page Source code
read_orthofinderSpeciesIDs Man page Source code
read_paf Man page Source code
read_pangenes Man page Source code
read_refGenomeAllBlast Man page Source code
read_refGenomeSynHits Man page Source code
read_synHits Man page Source code
rename_chrs Man page Source code
riparian_engine Man page Source code
round_rect Man page Source code
round_toInteger Man page Source code
run_genespace Man page Source code
run_mcscanx Man page Source code
run_orthofinder Man page Source code
run_orthofinderInBlk Man page Source code
scale_between Man page Source code
set_syntenyParams Man page Source code
slide_genome Man page Source code
subset_bedInGap Man page Source code
subset_minChrSize Man page Source code
syntenic_orthogroups Man page Source code
syntenic_pangenes Man page Source code
synteny Man page Source code
synteny_engine Man page Source code
theme_genespace Man page Source code
utils Man page
window_fasta Man page Source code
write_allBlast Man page Source code
write_combBed Man page Source code
write_intSynPos Man page Source code
write_pangenes Man page Source code
write_synHits Man page Source code
jtlovell/GENESPACE documentation built on Jan. 25, 2025, 6:39 a.m.

R Package Documentation

rdrr.io home R language documentation Run R code online

Browse R Packages

CRAN packages Bioconductor packages R-Forge packages GitHub packages

We want your feedback!

Note that we can't provide technical support on individual packages. You should contact the package authors for that.
GitHub issue tracker
ian@mutexlabs.com
Personal blog

 
Embedding an R snippet on your website

Add the following code to your website.

For more information on customizing the embed code, read Embedding Snippets.

Close