3D visualize

[Yifan-debug]

Hi developer.

Thanks alot for the useful tools and sorry for keep bothering.

I need a 3D visualiza on my xenium dataset. Now I can correctly load my xenium data and check the transcripts point on 2D shape. I'm wondering if there is any plan to add the 3D visualize feature.

I also try to subset my sdata["transcripts"] based on the z value. however, after subset, I try to construct the sdata, it's not working. and showed error code. ValueError('Unable to coerce to Series, length must be 11: given 2')

Please also let me know if you have better recommendation on 3D visualization of xenium data.

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ValueError Traceback (most recent call last) d:\Yifan_Wang\Software\envs\SP\lib\site-packages\dask\dataframe\utils.py in ?(funcname, udf) 214 ) 215 msg = msg.format(f" in {funcname}" if funcname else "", repr(e), tb) --> 216 raise ValueError(msg) from e

d:\Yifan_Wang\Software\envs\SP\lib\site-packages\dask\dataframe\core.py in ?(op, meta, out, transform_divisions, *args, **kwargs) 6624 for d in dasks 6625 ] -> 6626 with raise_on_meta_error(funcname(op)): 6627 meta = partial_by_order(*parts, function=op, other=other)

d:\Yifan_Wang\Software\envs\SP\lib\site-packages\dask\utils.py in ?(*args, **kwargs) 1474 for i, arg in other: 1475 args2.insert(i, arg) -> 1476 return function(*args2, **kwargs)

d:\Yifan_Wang\Software\envs\SP\lib\site-packages\pandas\core\ops\common.py in ?(self, other) 74 other = item_from_zerodim(other) 75 ---> 76 return method(self, other)

d:\Yifan_Wang\Software\envs\SP\lib\site-packages\pandas\core\arraylike.py in ?(self, other) 80 @unpack_zerodim_and_defer("ror") 81 def ror(self, other): ---> 82 return self.logical_method(other, roperator.ror)

d:\Yifan_Wang\Software\envs\SP\lib\site-packages\pandas\core\frame.py in ?(self, other, op) 7908 other = ops.maybe_prepare_scalar_for_op(other, (self.shape[axis],)) 7909 -> 7910 self, other = self._align_for_op(other, axis, flex=True, level=None) 7911

d:\Yifan_Wang\Software\envs\SP\lib\site-packages\pandas\core\frame.py in ?(self, other, axis, flex, level) 8185 ) 8186 # GH#17901 -> 8187 right = to_series(right) 8188

d:\Yifan_Wang\Software\envs\SP\lib\site-packages\pandas\core\frame.py in ?(right) 8131 else: 8132 if len(left.columns) != len(right): -> 8133 raise ValueError( 8134 msg.format(req_len=len(left.columns), given_len=len(right))

ValueError: Unable to coerce to Series, length must be 11: given 2

The above exception was the direct cause of the following exception:

ValueError Traceback (most recent call last) Cell In[46], line 1 ----> 1 merged_dict_crop = my_images | my_labels | filtered_data | my_shapes | my_tables 2 print(merged_dict.keys())

File d:\Yifan_Wang\Software\envs\SP\lib\site-packages\dask\dataframe\core.py:2124, in _Frame._get_binary_operator..(self, other) 2121 @classmethod 2122 def _get_binary_operator(cls, op, inv=False): 2123 if inv: -> 2124 return lambda self, other: elemwise(op, other, self) 2125 else: 2126 return lambda self, other: elemwise(op, self, other)

File d:\Yifan_Wang\Software\envs\SP\lib\site-packages\dask\dataframe\core.py:6626, in elemwise(op, meta, out, transform_divisions, *args, **kwargs) 6617 # For broadcastable series, use no rows. 6618 parts = [ 6619 d._meta 6620 if _is_broadcastable(d) (...) 6624 for d in dasks 6625 ] -> 6626 with raise_on_meta_error(funcname(op)): 6627 meta = partial_by_order(*parts, function=op, other=other) 6629 result = new_dd_object(graph, _name, meta, divisions)

File d:\Yifan_Wang\Software\envs\SP\lib\contextlib.py:153, in _GeneratorContextManager.exit(self, typ, value, traceback) 151 value = typ() 152 try: --> 153 self.gen.throw(typ, value, traceback) 154 except StopIteration as exc: 155 # Suppress StopIteration unless it's the same exception that 156 # was passed to throw(). This prevents a StopIteration 157 # raised inside the "with" statement from being suppressed. 158 return exc is not value

File d:\Yifan_Wang\Software\envs\SP\lib\site-packages\dask\dataframe\utils.py:216, in raise_on_meta_error(funcname, udf) 207 msg += ( 208 "Original error is below:\n" 209 "------------------------\n" (...) 213 "{2}" 214 ) 215 msg = msg.format(f" in {funcname}" if funcname else "", repr(e), tb) --> 216 raise ValueError(msg) from e

ValueError: Metadata inference failed in or_.

Original error is below:

ValueError('Unable to coerce to Series, length must be 11: given 2')

Traceback:

File "d:\Yifan_Wang\Software\envs\SP\lib\site-packages\dask\dataframe\utils.py", line 195, in raise_on_meta_error yield File "d:\Yifan_Wang\Software\envs\SP\lib\site-packages\dask\dataframe\core.py", line 6627, in elemwise meta = partial_by_order(*parts, function=op, other=other) File "d:\Yifan_Wang\Software\envs\SP\lib\site-packages\dask\utils.py", line 1476, in partial_by_order return function(*args2, **kwargs) File "d:\Yifan_Wang\Software\envs\SP\lib\site-packages\pandas\core\ops\common.py", line 76, in new_method return method(self, other) File "d:\Yifan_Wang\Software\envs\SP\lib\site-packages\pandas\core\arraylike.py", line 82, in ror return self.logical_method(other, roperator.ror) File "d:\Yifan_Wang\Software\envs\SP\lib\site-packages\pandas\core\frame.py", line 7910, in _arith_method self, other = self._align_for_op(other, axis, flex=True, level=None) File "d:\Yifan_Wang\Software\envs\SP\lib\site-packages\pandas\core\frame.py", line 8187, in _align_for_op right = to_series(right) File "d:\Yifan_Wang\Software\envs\SP\lib\site-packages\pandas\core\frame.py", line 8133, in to_series raise ValueError(